The
Chromosome Microdeletion/duplication Collection
References
Band |
OMIM |
Condition |
Critical
region/gene |
Location |
Start |
End |
Difference |
|
|
|
|
UCSC
Genome Browser on Human May 2004 Assembly (hg17) |
|
1p36.33 |
#607872 |
1p36
DELETION SYNDROME
(inc
HYPERTRICHOTIC OSTEOCHONDRODYSPLASIA 239850%)
|
SKI
*603055 |
chr1:2,192,296-2,271,618 |
2,192,296 |
2,271,618 |
79,322 |
1q21.1 |
0 |
1q21.1
MICRODELETION/Thrombocyto
penia-Absent Radius
syndrome (TAR) SYNDROME |
RP11-431G14
-
RP11-772D10
(Redon et al, 2006);
RP11 698N18
(Klopocki et al,
2007) |
431G14
chr1:143,845,668-144,024,663 to 772D10 chr1:144,459,424-144,617,808;
RP11-698N18: chr1 Chromosome 1 144,111,610
- 144,289,841
|
144,111,610 |
144,289,841 |
178,231 |
1q32-q41 |
#119300 |
VAN
DER WOUDE
SYNDROME; VWS |
no
CR |
|
|
|
|
1q42-q43 |
#241410 |
HYPOPARATHYROIDISM-RETARDATION-
DYSMORPHISM SYNDROME
(HRD) MICRODUPLICATION SYNDROME (inc Sanjad-Sakati syndrome and Kenny-Caffey
syndrome 244460) |
TBCE *604934 |
chr1:231,856,812-231,938,321 |
231,856,812 |
231,938,321 |
81,509 |
|
|
|
|
|
|
|
|
2p24.1 |
#164280 |
FEINGOLD
SYNDROME |
MYCN
*608025 and surrounding 1 Mb |
chr2:16,031,281-16,037,726 |
16,031,281 |
16,037,726 |
6,445 |
2p21 |
157170 |
HOLOPROSENCEPHALY
2 |
SIX3
*603714 (4
microdels in 339
severe HPEs -
Bendavid et al, 2006) |
chr2:45,080,512-45,084,092 |
45,080,512 |
45,084,092 |
3,580 |
2p15-p16.1 |
0 |
2p15-p16.1
MICRODELETION SYNDROME |
4.5
Mb (Rajcan-
Separovic et al,
2006) |
57.2
- 61.7 Mb |
57,200,000 |
61,700,000 |
4,500,000 |
2p16.3 |
#606407 |
HYPOTONIA-CYSTINURIA
SYNDROME |
SLC3A1
and PREPL |
chr2:44,414,250-44,459,588
and chr2:44,459,617-44,500,595 |
44,414,250 |
44,500,590 |
86,340 |
2q13 |
#256100 |
NEPHRONOPHTHISIS
1 |
NPHP1
(179,311bp homozygous
deletion) |
chr2:110,237,281-110,319,969 |
110,237,281 |
110,319,969 |
82,688 |
2q22.3 |
#235730 |
MOWAT-WILSON
SYNDROME |
ZFXH1B |
chr2:144,979,317-145,111,648 |
144,979,317 |
145,111,648 |
132,331 |
2q31-q32 |
*142991 |
SYNPOLYDACTYLY
1; SPD1 |
EVX2 |
chr2:176,768,723-176,774,307 |
176,768,723 |
176,774,307 |
5,584 |
2q31-q32 |
#186000 |
SYNPOLYDACTYLY
1 SPD1; BRACHYDACTYLY, TYPE D
BDD 113200;
BRACHYDACTYLY, TYPE E
BDE #113300; |
HOXD13
(esp
Goodman et al,
2002) |
chr2:176,783,039-176,785,307 |
176,783,039 |
176,785,307 |
2,268 |
2q31-q32 |
*142982 |
SYNPOLYDACTYLY
1; SPD1 |
HOXD9 |
chr2:176,812,595-176,815,031 |
176,812,595 |
176,815,031 |
2,436 |
|
188600% |
SPLIT-HAND/FOOT
MALFORMATION 5 |
No
SHFM5 gene yet |
Centromeric
to EVX2 (Goodman et al, 2002) |
|
|
|
2q32.2-q33 |
0 |
del(2)(q32.2q33)
deletion
syndrome |
8.1
Mb CR from
RP11-347P5 - RP11-
507C18 with aCGH
(Van Buggenhout G
et al, 2005) |
197.2
Mb - 205.3 Mb; SATB2 (NM_015265) at chr2:199959730-200150707
candidate gene (see Britanova O et al, 2006) |
199,959,730 |
200,150,707 |
190,977 |
2q37.1 |
605934% |
HOLOPROSENCEPHALY
6 |
No
gene yet |
|
|
|
|
2q37 |
600430% |
BRACHYDACTYLY/MR;
AHO-
like 3 |
HDAC4-tel
(Aldred
et al,2004); 1.5Mb
CR |
HDAC4
(NM_006037) at chr2:239706636-240058897; poss subtel
polymorphism |
239706636 |
240058897 |
352,261 |
|
|
|
|
|
|
|
|
3p25-p26 |
0 |
DISTAL
3p DELETION
SYNDROME |
CR D3S3630-
D3S1304 (Cargile et
al, 2006); 1.5 Mb CR
from D3S3630 to
RP11-32f23
(Dijkhuizen et al,
2006) |
D3S3630
chr3:2,575,496-2,775,754 to D3S1304 chr3:6,794,242-6,994,583;
D3S3630 to RP11-32F23 4,016,397-4,198,468 |
2,575,496 |
4,198,468 |
1,622,972 |
3p25-p26 |
*608537 |
Von
Hippel Lindau disease |
VHL |
chr3:10,158,319-10,168,744 |
10,158,319 |
10,168,744 |
10,425 |
3q23 |
#110100 |
BLEPHAROPHIMOSIS,
PTOSIS, AND EPICANTHUS INVERSUS; BPES |
FOXL2 |
chr3:140,145,766-140,148,499; |
140,145,766 |
140,148,499 |
2,733 |
|
|
" |
Upstream
position
effect (UPE) |
UPE
CR 140,377,649-140,503,837 |
140,377,649 |
140,503,837 |
126,188 |
|
|
" |
downstream
position effect
(DPE) |
DPE
CR 139,959,089-140,147,132 |
139,959,089 |
140,147,132 |
188,043 |
3q24 |
220200% |
DANDY-WALKER
SYNDROME; DWS |
7Mb
CR inc ZIC1
and ZIC4 (Grinberg
et al, 2004) |
ZIC
1 chr3:148,609,879-148,615,046; ZIC 4 chr3:148,586,535-148,607,105 |
148,586,535 |
148,615,046 |
28,511 |
3q27 |
605289 |
SPLIT-HAND/FOOT
MALFORMATION 4 |
TP73L |
no deletions |
|
|
|
3q29 |
609425% |
3q29
MICRODELETION
SYNDROME |
1.5
Mb CR from 1st centromeric deleted
clone to tel |
chr3:197,126,186-197,313,823
- qter |
197,126,186 |
199,505,740 |
2,379,554 |
|
|
|
|
|
|
|
|
4p16.3 |
#194190 |
WOLF-HIRSCHHORN
SYNDROME; WHS; WHSCR1 |
D4S166
- D4S3327
(Zollino et al, 2003) |
chr4:
CR 2,043,468(RP11
-262P20)
- pter; WHSC1 gene chr4:1,908,239-1,948,753
|
1,908,239 |
1,948,753 |
40,514 |
4p16.3 |
#194190 |
WOLF-HIRSCHHORN
SYNDROME; WHS; WHSCR2 |
D4S3327
- D4S98-
D4S168 (Zollino et
al, 2003) |
WHSC2
gene chr4:1,951,684-1,977,980 |
1,951,684 |
1,977,980 |
26,296 |
4p16.3 |
#262350 |
PITT-ROGERS-DANKS
syndrome |
Allelic
to above |
|
|
|
|
4q21.1-q21.3 |
0 |
4q21
microdeletion syndrome inc polycystic kidney disease |
4q21
CR for larger
deletions of 4q
(Velinov et al, 2005) |
PKD2
gene (NM_000297) (OMIM 173910) |
89285999 |
89356107 |
70,108 |
4q25 |
180500 |
RIEGER
TYPE 1 |
PTX2
(RIEG1) |
chr4:111,758,031-111,777,957 |
111,758,031 |
111,777,957 |
19,926 |
|
|
|
|
|
|
|
|
5p15.33-p15.2 |
123450 |
CRI-DU-CHAT
etc |
See
Zhang X et al,
2005) |
|
|
|
|
5p15.33-p15.32 |
|
speech
delay CR 3.2 Mb |
D5S417-D5S635 |
chr5:3,074,203-3,274,461
- chr5:6,265,580-6,465,938 |
3,274,461 |
6,265,580 |
2,991,119 |
5p15.32-p15.31 |
|
cat
cry CR 1.5 Mb |
D5S2054
- D5S676 |
chr5:5,844,886-6,045,198
- chr5:7,392,488-7,592,901 |
6,045,198 |
7,392,488 |
1,347,290 |
5p15.31-p15.31 |
|
mental
retardation 1 CR 1.2 Mb |
Clones
15 and 18 |
chr5:8,021,000
- 9,288,000 |
8,021,000 |
9,288,000 |
1,267,000 |
5p15.31-p15.2 |
|
dysmorphology
CR 2.4Mb |
D5S208-D5S2887 |
chr5:8,939,505-9,139,654
- chr5:11,388,086-11,588,196 |
9,139,654 |
11,388,086 |
2,248,432 |
5p13.2 |
#122470 |
CORNELIA
DE LANGE
SYNDROME; CDLS |
NIPBL |
chr5:11,388,086-11,588,196 |
11,388,086 |
11,588,196 |
200,110 |
5q22.2 |
175100 |
ADENOMATOUS
POLYPOSIS
OF THE COLON; APC
(GARDNER SYNDROME) |
APC |
chr5:112,101,483-112,209,834 |
112,101,483 |
112,209,834 |
108,351 |
5q35.1 |
#187500 |
5q35
microdeletion syndrome inc TETRALOGY OF FALLOT |
2.2
Mb CR inc NKX2-
5 (Baekvad-Hansen
et al, 2006)/NKX2E |
chr5:172,591,744-172,594,868 |
172,591,744 |
172,594,868 |
3,124 |
5q35.1 |
264480 |
HOLOPROSENCEPHALY-POLYDACTYLY
SYNDROME; Pseudotrisomy 13 syndrome |
FBXW11 Koolen et
al, 2006 |
chr5:171,221,161-171,366,482 |
171,221,161 |
171,366,482 |
145,321 |
5q35.2 |
#168500 |
PARIETAL
FORAMINA; PFM |
206kb
CR inc MSX2 (123101) (Wilkie et
al, 2000) |
MSX2
(NM_002449) at chr5:174084208-174090507 |
174084208 |
174090507 |
6,299 |
5q35 |
#117550 |
SOTOS
(WEAVER SYNDROME) |
NSD1 |
chr5:176,493,532-176,655,367 |
176,493,532 |
176,655,367 |
161,835 |
5q35 |
0 |
SOTOS
MICRODUPLICATION SYNDROME |
NSD1
(Kirchhoff et
al, 2006) |
chr5:176,493,532-176,655,367 |
176,493,532 |
176,655,367 |
161,835 |
|
|
|
|
|
|
|
|
6p25.3 |
602482% |
AXENFELD-RIEGER
ANOMALY WITH CARDIAC DEFECTS AND SENSORINEURAL HEARING
LOSS |
terminal
deletion of
6p25 inc FOXC1 |
chr6:1,555,680-1,557,341 |
1,555,680 |
1,557,341 |
1,661 |
6p21.3 |
201910 |
0011
ADRENAL
HYPERPLASIA, CONGENITAL,
DUE TO 21-HYDROXYLASE DEFICIENCY, SALT-WASTING TYPE |
CYP21A2,
30-KB
DEL |
chr6:32,114,061-32,117,398 |
32,114,061 |
32,117,398 |
3,337 |
6q16.2 |
*603128 |
Prader-Willi
like - SINGLE-
MINDED, DROSOPHILA,
HOMOLOG OF, 1; SIM1 |
SIM1
deletion (see
Faivre et al 2002) |
chr6:100,943,472-101,018,272 |
100,943,472 |
101,018,272 |
74,800 |
6q24.2 |
601410% |
TRANSIENT
NEONATAL
DIABETES MELLITUS (TNDM) MICRODUPLICATION
SYNDROME |
ZAC
(PLAGL1) |
chr6:144,303,132-144,371,246 |
144,303,132 |
144,371,246 |
68,114 |
|
|
|
|
|
|
|
|
7p21.1 |
#101400 |
SAETHRE-CHOTZEN
SYNDROME; SCS |
TWIST1 |
chr7:18,928,331-18,930,265 |
18,928,331 |
18,930,265 |
1,934 |
7p14.1 |
#175700 |
GREIG
CEPHALOPOLYSYNDACTYLY SYNDROME |
GLI3 |
chr7:41,776,920-42,036,135 |
41,776,920 |
42,036,135 |
259,215 |
7q11.23 |
#194050 |
WILLIAMS-BEUREN
SYNDROME; MICRODELETION AND MICRODUPLICATION SYNDROMES |
1.55
Mb CR between repeats inc ELN1
gene |
ELN
chr7:72,887,122-72,927,681 |
72,887,122 |
72,927,681 |
40,559 |
7q11.23 |
#609757 |
WILLIAMS-BEUREN
REGION DUPLICATION SYNDROME |
1.55
Mb CR between repeats inc ELN1
gene |
ELN
chr7:72,887,122-72,927,681 |
72,887,122 |
72,927,681 |
40,559 |
7q21.3 |
183600% |
SPLIT-HAND/FOOT
MALFORMATION 1 |
DSS1 |
chr7:95,962,731-95,983,854 |
95,962,731 |
95,983,854 |
21,123 |
7q31.1 |
#602081 |
SPEECH-LANGUAGE
DISORDER 1; SPCH1; (inc Developmental verbal
dyspraxia DVD) |
FOXP2 |
chr7:113,649,227-113,924,106 |
113,649,227 |
113,924,106 |
274,879 |
7q36 |
*600725 |
HOLOPROSENCEPHALY
3 |
SONIC
HEDGEHOG; SHH
(7 microdels in 339
severe HPEs -
Bendavid et al, 2006) |
chr7:155,095,034-155,104,443 |
155,095,034 |
155,104,443 |
9,409 |
7q36 |
#176450 |
SACRAL
AGENESIS
(CURRARINO SYNDROME) |
HLXB9 |
chr7:156,297,023-156,302,701 |
156,297,023 |
156,302,701 |
5,678 |
|
|
|
|
|
|
|
|
8p23.1 |
0 |
8p23.1
MICRODELETION/DUPLICATION SYNDROME (inc FRYNS SYNDROME
accd Slavotinek et
al (2005)) |
REPD-REPP
MFHAS1-CTSB (DECIPHER) |
chr8:8,680,942-8,787,978
to chr8:11,739,236-11,763,044 (8,156,705-11,803,128) |
8,680,942 |
11,763,044 |
3,082,102 |
8p11.2 |
#147950 |
KALLMAN
2 |
FGFR1 |
chr8:38,389,449-38,445,293 |
38,389,449 |
38,445,293 |
55,844 |
8q12.2 |
#214800 |
CHARGE
SYNDROME |
CHD7 |
chr8:61,753,893-61,942,017 |
61,753,893 |
61,942,017 |
188,124 |
8q21.3-q22.1 |
608156% |
NABLUS
MASK-LIKE FACIAL SYNDROME |
RP11-100L22
-
RP11-90N3 (RP11-
31K23 not on UCSC browser) |
chr8:93,721,478-93,889,438
- chr8:96,904,503-97,062,457 |
93,721,478 |
97,062,457 |
3,340,979 |
8q23.3-q24.11 |
#150230 |
TRICHORHINOPHALANGEAL
SYNDROME, TYPE II; TRPS2 (LANGER-GIEDION) |
TRPS1
to EXT1 |
TRPS1
chr8:116,489,900-116,750,429; EXT1 chr8:118,880,787-119,193,239 |
116,489,900 |
119,193,239 |
2,703,339 |
|
|
|
|
|
|
|
|
9p24.3 |
*602424;
*604935 |
9p24
sex reversal deletion sydrome |
DMRT1
and DMRT2 |
DMRT1
chr9:831,690-959,088 |
831,690 |
959,088 |
127,398 |
9p24.3 |
*602424;
*604935 |
9p24
sex reversal deletion sydrome |
DMRT1
and DMRT2 |
DMRT2
chr9:1,041,614-1,047,550 |
1,041,614 |
1,047,550 |
5,936 |
9p |
#158170 |
MONOSOMY
9p SYNDROME |
4.7-Mb
CR from
RP11-933C16 in
9p23 to D9S285 in
9p22.3 |
(chr9:11,355,596-11,546,331)
to (chr9:15,967,945-16,168,221) |
11,355,596 |
16,168,221 |
4,812,625 |
9p13.1-9q21.11 |
0 |
PERICENTROMERIC
9p/q euchromatic variant regions |
402N8
- 88I18 (ref
Willatt et al, 2006) |
39 Mb
and 70 Mb from telomere full of 9p/q duplicons |
39,000,000 |
70,000,000 |
31,000,000 |
9q22.32 |
601309 |
HOLOPROSENCEPHALY
7 |
PTCH |
chr9:95,285,955-95,350,386 |
95,285,955 |
95,350,386 |
64,431 |
9q22.32 |
#109400 |
BASAL
CELL NEVUS
SYNDROME; |
PTCH |
chr9:95,285,955-95,350,386 |
95,285,955 |
95,350,386 |
64,431 |
9q22.3 |
0 |
9q22.3
microdeletion syndrome |
6.5
Mb CR (Redon et
al, 2006) |
RP11-333I7
to RP11-96L7 |
94415600 |
99098674 |
4683074 |
9q33.3 |
#161200 |
NAIL-PATELLA
SYNDROME;
NPS |
LMX1B |
chr9:126,456,352-126,538,284 |
126,456,352 |
126,538,284 |
81,932 |
9q34.3 |
#610253 |
9q
SUBTELOMERIC DELETION SYNDROME |
EHMT1 |
EHMT1
(NM_024757) at chr9:137,881,254-138,006,413 |
137,881,254 |
138,006,413 |
125,159 |
|
|
|
|
|
|
|
|
10p14 |
#146255 |
HYPOPARATHYROIDISM,
SENSORINEURAL DEAFNESS, AND RENAL DISEASE |
GATA3 |
GATA3
(NM_001002295) at chr10:8136673-8157170 |
8136673 |
8157170 |
20,497 |
10p12.31 |
605491 |
DGS2 |
NEBL |
NEBL
(NM_006393) at chr10:21110096-21226537 |
21110096 |
21226537 |
116,441 |
10q22-q23
|
0 |
10q22-q23 MICRODELETION SYNDROME |
7.2 Mb CR between LCR3 and 4 (Balciuniene
et al, 2007)
inc candidates NRG3, BMPR1A, SNCG and GLUD1 |
32 genes inc LOC387693
at chr10:81,654,634-81,700,763 through
to FAM22A at chr10:89107457-89120432 |
81,654,634 |
89,120,432 |
7,465,798 |
10q23.2-q23.3
|
174900 |
JUVENILE POLYPOSIS CONTIGUOUS DELETION SYNDROME |
2Mb CR inc PTEN and BMPR1A (Delnatte
et al, 2006) |
1.8
Mb bewteen BMPR1A and LIPF genes |
88,623,207 |
90,446,243 |
1,823,036 |
10q24.32 |
#600095;
*608071 |
SPLIT-HAND/FOOT
MALFORMATION 3; SHFM3; MICRODUPLICATION WITH DACTYLIN (FBXW4)
DISRUPTION |
~
0.5 Mb dup [inc
LBX1, BTRC, POLL (606343), and
DPCD] with
disruption of FBXW4 |
LBX1
(NM_006562) at chr10:102976724-102978707; BTRC (NM_033637)
at chr10:103103815-103307058; POLL (NM_013274) at chr10:103328629-103337963
; RP11-529I10.4 (NM_015448) at chr10:103338079-103359399;
FBXW4 (NM_022039) at chr10:103360412-103444733 |
102976724 |
103444733 |
468,009 |
|
|
|
|
|
|
|
|
11p15.5 |
#130650; |
BECKWITH-WIEDEMAN SYNDROME INC H19, 1.8-KB
DEL AND LIT1, DEL |
BWS
Microdels |
H19
chr11:1,972,984-1,975,280 |
1,972,984 |
1,975,280 |
2,296 |
" |
" |
" |
" |
KCNQ10T1
(LIT1) |
|
|
0 |
11p13 |
#106210 |
ANIRIDIA,
TYPE II; AN2 |
PAX6;
607108 |
PAX6
(NM_001604) at chr11:31768058-31789341 |
31768058 |
31789341 |
21,283 |
11p14-p13 |
#194072 |
WAGR
SYNDROME |
PAX6,
WT1 etc |
PAX6
(NM_001604) at chr11:31768058-31789341; WT1 (X51630) at
chr11:32365897-32413643 |
31768058 |
32413643 |
645,585 |
11p11.2 |
#601224;
#168500
|
POTOCKI-SHAFFER
SYNDROME (PSS) INC
MULTIPLE EXOSTOSES
(#133701 EXT2) AND PARIETAL FORAMINA (#168500 ALX4);
PSS MR CR |
2.1
Mb, spanning
from D11S1393 to D11D1385/D11S1319
(Wakui et al, 2005);
MR; 1.1 Mb of
11p11.2 between
D11S1361 and
D11S1344 |
CR chr11:43,851,376-44,051,689
- chr11:45,893,944-46,094,274; MR chr11:44,802,107-45,002,385
- chr11:46,023,436-46,223,802 |
43,851,376 |
46,223,802 |
2,372,426 |
11q14.1-q14.2 |
#133780
*604579 |
11q14
microdeletion syndrome inc Exudative VitreoRetinopathy
(EVR) |
~
78.6 Mb - 88 Mb
inc FZD4 (Li et al,
2006) |
FZD4
(NM_012193) at chr11:86334370-86344081 - frizzled 4 |
86,334,370 |
86,344,081 |
9,711 |
11q23.3-qter |
#147791 |
11q
TERMINAL DELETION SYNDROME JACOBSEN SYNDROME) (inc Paris-
Trousseau thrombocytopenia) |
42
known genes
between FRA11B
and qter
|
chr11:
118,100,000 - qter |
118,100,000 |
134,452,384 |
16,352,384 |
|
|
|
|
|
|
|
|
12q14
|
#166700 |
12q14
MICRODELETION SYNDROME INC OSTEOPOIKILOSIS (BUSCHKE-OLLENDORFF
SYNDROME) |
3.44 Mb CR inc LEMD3, HMGA2 and GRIP1 (Menten
et al, 2007) |
LEMD3
(NM_014319) at chr12:63849638-63928374 |
63849638 |
63928374 |
78,736 |
12q24.1 |
#163950 |
NOONAN
SYNDROME |
PTPN11 |
PTPN11
(NM_002834) at chr12:111319256-111410436 |
111319256 |
111410436 |
91,180 |
|
|
|
|
|
|
|
|
13q12.3-q13.1 |
600185 |
del(13)(q12.3q13.1)
MICRODELETION SYNDROME
INC AR PETERS PLUS
SYNDROME AND BRCA2 |
1.5
Mb CR from
RP11-95N14 to
RP11-37E23 (Lesnik Oberstein, S et al,
2005) |
CR INC
LGR8 LGR8 (NM_130806) at chr13:31211679-31275009 (assoc
testicular maldescent) and BRCA2 |
31211679 |
31275009 |
63,330 |
" |
" |
" |
" |
BRCA2
(NM_000059) at chr13:31787617-31871805 |
31787617 |
31871805 |
84,188 |
13q14.2 |
180200 |
RETINOBLASTOMA;
RB1 |
RB1 |
RB1
(NM_000321) at chr13:47775912-47954023 |
47775912 |
47954023 |
178,111 |
13q22 |
#600155 |
HIRSCHSPRUNG
DISEASE 2; HSCR2 INC 13q22 DELETION SYNDROME |
EDNRB |
EDNRB
(NM_003991) at chr13:77368544-77390935 |
77368544 |
77390935 |
22,391 |
13q32.3 |
#609637 |
HOLOPROSENCEPHALY
5;
HPE5 |
ZIC2
*603073 (3
microdels in 339
severe HPEs -
Bendavid et al, 2006) |
ZIC2
(NM_007129) at chr13:99432320-99437019 |
99432320 |
99437019 |
4,699 |
|
|
|
|
|
|
|
|
14q12-q13 |
#604625 |
OLIGODONTIA |
PAX9 167416 |
PAX9
(NM_006194) at chr14:36200656-36215621 |
36200656 |
36215621 |
14,965 |
14q22-q23 |
0 |
14q22-q23
microdeletion
syndrome |
9.66
Mb CR inc
BMP4, OTX2, TRN1,
SIX6, SIX1 and SIX4 |
BMP4
(NM_001202) at chr14:53486207-53493362 to SIX4 (NM_017420)
at chr14:60246011-60260545 |
53486207 |
60260545 |
6,774,338 |
|
|
|
|
|
|
|
|
15q11.2-q13
|
#176270; #105830 |
PRADER-WILLI; ANGELMAN MICRODELETION SYNDROME |
5 Mb CR inc SNRPN/UBE3A (Sahoo
et al, 2005) |
5.3 Mb CR between BP2 at chr15:21,129,692-21,314,466 and
BP3 at chr15:26,598,041-26,709,341 |
21,314,466 |
26,598,041 |
5,283,575 |
15q11.2-q13 |
0 |
15q11.2-q13 MICRODUPLICATION SYNDROME |
5 Mb CR inc SNRPN/UBE3A |
5.3 Mb CR between BP2 at chr15:21,129,692-21,314,466 and
BP3 at chr15:26,598,041-26,709,341 |
21,314,466
|
26,598,041 |
5,283,575 |
15q11.2-q13
|
|
PWS/AS IMPRINTING CENTRE MICRODELETIONS |
? ~ 880 bp |
|
|
|
|
15q13.1-q13.3
|
0 |
15q13 MICRODELETION SYNDROME (not yet published) |
1.2 MB minimum CR between BP3 and BP4 |
BP3 at chr15:26,598,041-26,709,341
and BP4 at chr15:27,906,178-28,091,821 |
26,709,341 |
27,906,178 |
1,196,837 |
15q15.3
|
0 |
15q15.3 DEAFNESS AND INFERTILITY SYNDROME |
100 kb CR inc KIAA0377, CKMT1B, STRC and CATSPER2 (Zhang
et al, 2007) |
KIAA0377 at chr15:41612967-41664383 and CATSPER2 at chr15:41710065-41728331 |
41612967 |
41728331 |
115,364 |
15q21-q22 |
0 |
15q21
MICRODELETION SYNDROME (1 patient so far) |
8
Mb CR (See
Pramparo et al,
2005) |
|
|
|
0 |
15q23-q25.1
|
0 |
15q24 MICRODELETION SYNDROME |
1.7Mb minimum CR between BP1 and 2 (Sharp
et al, 2007)
|
72.15 and 73.85 Mb from telomere |
72,150,000 |
73,850,000 |
1,700,000 |
15q26.2 |
142340 |
DIAPHRAGMATIC
HERNIA, CONGENITAL (INC FRYNS SYNDROME) |
1
- 2 Mb CR
(Slavotinek et al,
2005) |
chr15:
94,434,555 - 95,865,430 |
94,434,555 |
95,865,430 |
1,430,875 |
|
|
|
|
|
|
|
|
16p13.3 |
#191100 |
TUBEROUS
SCLEROSIS; TS |
TSC2
(191092) |
TSC2
(NM_021056) at chr16:2038600-2078713 |
2038600 |
2078713 |
40,113 |
16p13.3 |
0 |
SEVERE
RSTS |
3'
CREBBP plus
DNASE1 |
DNASE1
(NM_005223) at chr16:3642941-3648096 |
3642941 |
3648096 |
5,155 |
16p13.3 |
#180849 |
RUBINSTEIN-TAYBI
SYNDROME; RSTS |
CREBBP;
600140 |
CREBBP
(U85962) at chr16:3717720-3870723 |
3717720 |
3870723 |
153,003 |
16p13.1
|
0 |
16p13.1 MICRODUPLICATION/ DELETION SYNDROME |
1.5 Mb CR (Ullmann
et al, 2007) |
BACs RP11-566I03 to RP11-413I10 |
14,899,000 |
16,390,000 |
1,491,000 |
16q21-q22 |
0 |
16q21-q22
microdeletion
syndrome |
CBFB
(Khan et al,
2006) |
CBFB
(NM_022845) at chr16:65620551-65692457 |
65620551 |
65692457 |
71,906 |
16q24.3 |
*607139 |
FANCA
GENE; FANCA |
FANCA
- large
intragenic deletions |
FANCA
(NM_000135) at chr16:88331460-88410555 |
88331460 |
88410555 |
79,095 |
|
|
|
|
|
|
|
|
17p13.3 |
#247200 |
MILLER-DIEKER
LISSENCEPHALY SYNDROME; MDLS |
CR1
LIS1 itself (PAFAH1B1;
601545); MDS
deletions extend telomerically to
CR2 from YWHAE
(14-3-3-epsilon) to
ABR (600365)
(Cardoso et al,
2003). |
CR1
PAFAH1B1 (NM_000430) at chr17:2443686-2535638 to CR2
YWHAE (NM_006761) at chr17:1194595-1250267 to ABR (NM_021962)
at chr17:853510-1029881 inclusive |
1029881 |
1194595 |
164,714 |
17p13.3 |
#607432 |
LISSENCEPHALY
I; LIS1 |
CR
LIS1
(PAFAH1B1;
601545) (extends to
PITPNA but NOT
YWHAE) (Cardoso
et al, 2003) |
PAFAH1B1
chr17:2,443,686-2,535,638 (PITPNA at chr17:1368035-1412835
) |
2,443,686 |
2,535,638 |
91,952 |
17p11.2 |
#118220 |
CHARCOT-MARIE-TOOTH
DISEASE, DEMYELINATING,
TYPE 1A MICRODUPLICATION SYNDROME |
PMP22 |
PMP22
(NM_000304) at chr17:15073822-15109369 |
15073822 |
15109369 |
35,547 |
17p11.2 |
#162500 |
NEUROPATHY,
HEREDITARY, WITH LIABILITY TO
PRESSURE PALSIES; HNPP MICRODELETION SYNDROME |
PMP22 |
PMP22
(NM_000304) at chr17:15073822-15109369 |
15073822 |
15109369 |
35,547 |
17p11.2 |
#182290 |
SMITH-MAGENIS
SYNDROME; SMS |
RAI1
*607642 |
RAI1
(NM_030665) at chr17:17525512-17655488 |
17525512 |
17655488 |
129,976 |
17p11.2 |
0 |
17p11.2
MICRODUPLICATION SYNDROME |
RAI1
*607642
(Potocki et al, 2007) |
RAI1
(NM_030665) at chr17:17525512-17655488 |
17525512 |
17655488 |
129,976 |
17q11.2 |
162200 |
NEUROFIBROMATOSIS,
TYPE
I; NF1 |
NF1;
JJAZ1
(interrupted in
common mosaic
cases (buccal
smear better than
blood) Kehrer-
Sawatzki et al,
2004) |
NF1
(NM_000267) at chr17:26446243-26725590; JJAZ1chr17:27,288,185-27,352,162 |
27,288,185 |
27,352,162 |
63,977 |
17q12 |
0 |
17q12
MICRODUPLICATION SYNDROME (1 patient so far) |
2.5
Mb CR between
seg dups (Sharp et
al, 2006) |
31.5
- 34 Mb from tel |
31,500,000 |
34,000,000 |
2,500,000 |
17q12-q21 |
*605740 |
SCLEROSTIN;
SOST INC VAN BUCHEM DISEASE |
52kb
SOST control
region deletion 35kb downstream (1
family, Balemans et
al, 2002) |
SOST
(NM_025237) at chr17:39186625-39191682 |
39186625 |
39191682 |
5,057 |
17q21.31 |
*610443 |
CHROMOSOME
17q21.31 MICRODELETION SYNDROME |
478kb
CR inc MAPT
and CRHR1 (Sharp
et al, 2006) RP11-
769P22 - RP11-
100C5 |
RP11-769P22
chr17:41,288,423-41,466,041 to RP11-100C5 chr17:41,178,738-41,346,570
inclusive |
41,288,423 |
41,346,570 |
58,147 |
|
|
|
|
|
|
|
|
18p11.31 |
#142946 |
HOLOPROSENCEPHALY
4;
HPE4 |
TGIF
(2 microdels in
339 severe HPEs - Bendavid et al, 2006) |
TGIF
(NM_170695) at chr18:3441591-3448404 |
3441591 |
3448404 |
6,813 |
18q12.3-q21.1
|
0 |
PROXIMAL 18q MICRODELETION SYNDROME |
5 Mb CR (Cody
et al, 2007) |
Multiple candidate genes |
37,500,000 |
42,500,000 |
5,000,000 |
18q21.2
|
#610954 |
PITT HOPKINS SYNDROME |
0.5 Mb CR inc part TCF4 *602272 (Brockschmidt
et al, 2007) |
TCF4 chr18:51,040,560-51,406,858 |
51,040,560 |
51,406,858 |
366,298 |
18q22.3 |
0 |
18q22.3-q23
microdeletion
syndrome |
2.3
MB CR from
ZNF407 to GALR1 |
ZNF407
(NM_017757) at chr18:70474282-70762002 to GALR1 (NM_001480)
at chr18:73090721-73111081 |
70474282 |
73111081 |
2,636,799 |
|
|
|
|
|
|
|
|
19q13.2 |
#105650 |
DIAMOND-BLACKFAN
ANEMIA; DBA with MR |
3.2
Mb CR inc
RPS19; 603474 (
Tentler et al, 2000) |
RPS19
(NM_001022) at chr19:47055828-47067322 |
47055828 |
47067322 |
11,494 |
|
|
|
|
|
|
|
|
20p12.2 |
#118450 |
ALAGILLE
SYNDROME 1;
ALGS1 |
JAG1;
601920 |
JAG1
(NM_000214) at chr20:10566334-10602590 |
10566334 |
10602590 |
36,256 |
20q13.32 |
#103580 |
ALBRIGHT
HEREDITARY OSTEODYSTROPHY; AHO; PSEUDOHYPOPARATHYROID
ISM, TYPE IA, INCLUDED |
GNAS1
(Aldred et al,
2002) |
GNAS
(NM_016592) at chr20:56848190-56919640 |
56848190 |
56919640 |
71,450 |
|
|
|
|
|
|
|
|
21q22.3 |
#190685 |
DOWN
SYNDROME |
DSCR1
(602917) |
DSCR1
(U28833) at chr21:34810658-34908012 |
34810658 |
34908012 |
97,354 |
" |
" |
" |
DYRK1A
(600855) |
DYRK1A
(NM_130438) at chr21:37714471-37809347 |
37714471 |
37809347 |
94,876 |
21q22.3 |
236100% |
HOLOPROSENCEPHALY
1;
HPE1 |
TMEM1
candidate
gene only |
cTMEM1
(NM_003274) at chr21:44256634-44350858 |
|
|
0 |
|
|
|
|
|
|
|
|
22q11.1 |
#115470 |
CAT EYE SYNDROME; CES |
450-650 kb CR from D22S427 to D22S36 (not in UCSC)
(McTaggart et al, 1998);
core CR from Il-17R to ATP6E (Footz
et al, 2001 esp patient
25105)
|
D22S427 chr22:16,865,871-17,066,188 plus
450kb equals 17,521,634; IL-17R 15,940,412-15,965,941 and
ATP6E 16,449,479-16,486,089 |
15,940,412 |
16,486,089 |
545,677 |
22q11.2
|
#188400 |
DIGEORGE SYNDROME; DGS |
3.0 and 1.5 Mb CRs inc TUPLE1 (HIRA) and TBX1 |
TUPLE1 (HIRA) HIRA (NM_003325) at chr22:17692778-17793773;
TBX1 (NM_005992) at chr22:18118780-18145664 |
18118780 |
18145664 |
26,884 |
22q11.2
|
#608363 |
MICRODUPLICATION 22q11.2 |
TUPLE1 (HIRA) and TBX1 |
TUPLE1 (HIRA) HIRA (NM_003325) at chr22:17692778-17793773;
TBX1 (NM_005992) at chr22:18118780-18145664 |
18118780 |
18145664 |
26,884 |
22q12.2
|
#101000 |
NF2 MICRODELETION SYNDROME (NEUROFIBROMATOSIS
TYPE II) |
NF2, *607379 (Bruder
et al, 2001) |
NF2
(NM_181835) at chr22:28324119-28419137 |
28,324,119 |
28,419,137 |
95,018 |
22q13.3 |
#606232 |
CHROMOSOME
22q13.3
DELETION SYNDROME |
Last
100kb of 22q
(Bonaglia et al,
2006) SHANK3
(ProSAP2) (606230) |
SHANK3
*606230 chr22:49403214-49459884 ("non-human
Ref Seq gene") |
49403214 |
49459884 |
56,670 |
|
|
|
|
|
|
|
|
Xp22.33 |
*312865;
#127300 |
SHOX
AND LERI-WEILL DYSCHONDROSTEOSIS; LWD |
SHOX
and DPE 30
to 530 kb downstream |
SHOX
chrX:505,079-532,318 Ref Joh Crolla |
|
|
0 |
Xp22.32-p22.31 |
#300495 |
AUTISM,
X-LINKED, SUSCEPTIBILITY TO, 2 |
CR
PAR boundary- DXS7103 (Thomas
et al, 1999) inc
NLGN4 (300427) |
NLGN4
chrX:5,818,085-6,155,888 |
5,818,085 |
6,155,888 |
337,803 |
Xp22.31 |
308100 |
ICHTHYOSIS,
X-LINKED |
STS |
chrX:7,147,497-7,282,680 |
7,147,497 |
7,282,680 |
135,183 |
Xp22.31 |
308700 |
KALLMANN
SYNDROME 1;
KAL1 |
KAL1 |
chrX:8,456,916-8,660,227 |
8,456,916 |
8,660,227 |
203,311 |
Xp22 |
#309801 |
MICROPHTHALMIA,
SYNDROMIC 7; MCOPS7 |
HCCS
gene (300056) |
chrX:11,039,373-11,051,122 |
11,039,373 |
11,051,122 |
11,749 |
Xp21.3-p21.2 |
#300200;
#300018 |
ADRENAL
HYPOPLASIA, CONGENITAL; AHC
microdeletions; DOSAGE-
SENSITIVE SEX REVERSAL;
DSS duplications |
DAX1
("non-human RefSeq gene")
(=NR0B1) |
DAX1
chrX:30,232,609-30,237,205 |
30,232,609 |
30,237,205 |
4,596 |
Xp21.2 |
#310200 |
MUSCULAR
DYSTROPHY, DUCHENNE TYPE; DMD |
DMD |
chrX:31,048,667-33,139,448 |
31,048,667 |
33,139,448 |
2,090,781 |
Xp21.2 |
*300474 |
Complex
GLYCEROL KINASE; cGKD (Stanczak
et al, 2006) |
DAX1,
DMD and GK |
GK chrX:30,581,461-30,658,645 |
30,581,461 |
30,658,645 |
77,184 |
Xq13.2 |
*314670 |
X
INACTIVATION-SPECIFIC TRANSCRIPT; XIST |
XIST |
chrX:72,863,307-73,063,491 |
72,863,307 |
73,063,491 |
200,184 |
Xq22.1 |
300300 |
BRUTON
AGAMMAGLOBULINEMIA TYROSINE KINASE; BTK; DEAFNESS/DYSTONIA
PEPTIDE 1 (Richter D et al,
2001) |
BTK
+ TIMM8A
(DDP) *300356 |
TIMM8A
(NM_004085) at chrX:100406795-100409832; BTK (NM_000061)
at chrX:100410587-100447327 |
100,406,795 |
100,447,327 |
40,532 |
Xq22 |
#312080 |
PELIZAEUS-MERZBACHER
DISEASE; PMD |
PLP1;
300401 |
chrX:102,918,410-102,934,201 |
102,918,410 |
102,934,201 |
15,791 |
Xq25 |
#308240 |
LYMPHOPROLIFERATIVE
SYNDROME, X-LINKED
(DUNCAN's DISEASE) |
XLP |
chrX:123,205,729-123,232,540 |
123,205,729 |
123,232,540 |
26,811 |
Xq27.1 |
#300123 |
MENTAL
RETARDATION, X-
LINKED, WITH ISOLATED
GROWTH HORMONE
DEFICIENCY; MRGH |
SOX3
(313430) |
chrX:139,310,672-139,312,745 |
139,310,672 |
139,312,745 |
2,073 |
Xq27.3 |
309550 |
FRAGILE
SITE MENTAL RETARDATION 1 GENE; FMR1 |
FMR1 |
chrX:146,699,055-146,738,157 |
146,699,055 |
146,738,157 |
39,102 |
Xq28 |
#300475 |
CONTIGUOUS
ABCD1/DXS1375E DELETION SYNDROME |
ABCD1 |
chrX:152,511,183-152,531,028 |
152,511,183 |
152,531,028 |
19,845 |
Xq28 |
#312750 |
RETT
SYNDROME; RTT |
MECP2 |
chrX:152,808,111-152,883,976 |
152,808,111 |
152,883,976 |
75,865 |
|
|
|
|
|
|
|
|
Yp11.31 |
*480000 |
SEX-DETERMINING
REGION Y; SRY |
SRY |
chrY:2,698,257-2,699,153 |
2,698,257 |
2,699,153 |
896 |
Yq11.21 |
*400003 |
DELETED
IN AZOOSPERMIA;
DAZ |
AZFa |
STSs
sY740 chrY:12,781,306-12,981,666 to sY709 chrY:13,532,211-13,732,321
(Blanco et al, 2000); Sharp et al polymorphism chrY:12757298-12924529 |
12,981,666 |
13,532,211 |
550,545 |
Yq11.223-Yq11.23 |
*400003 |
DELETED
IN AZOOSPERMIA;
DAZ |
AZFc |
STS
SY579 at chrY:23592473-23792736 - (SY579) and at chrY:25206858-25407121 |
23592473 |
25407121 |
1,814,648 |
|
|
|
|
BPY2
(NM_004678) at chrY:23468535-23489733 - variable charge,
Y chromosome, 2 protein, at chrY:25102276-25123475 and
at chrY:25515177-25536376 |
23468535 |
25536376 |
2,067,841 |
|
|
|
|
DAZ1
(NM_004081) at chrY:23613633-23683282 - deleted in azoospermia
and at chrY:25318189-25391306 |
23613633 |
25391306 |
1,777,673 |
|
|
|
|
GOLGA2LY
(AF332229) at chrY:24694239-24699103 - golgi autoantigen,
golgin subfamily a, 2-like, Y-linked and at chrY:25939583-25944447 |
24694239 |
25944447 |
1,250,208 |
|
|
|
|
CDY1
(NM_170723) at chrY:24530067-24532286 - Y chromosome chromodomain
protein 1, telomeric; CDY1 (NM_170723) at chrY:26106389-26108608
- Y chromosome chromodomain protein 1, telomeric; CDY1
(NM_004680) at chrY:24529504-24532286 - Y chromosome chromodomain
protein 1, telomeric; CDY1 (NM_004680) at chrY:26106389-26109171
- Y chromosome chromodomain protein 1, telomeric |
24529504 |
26109171 |
1,579,667 |
|
|