SDC2 (syndecan 2) - Rat Genome Database

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Gene: SDC2 (syndecan 2) Homo sapiens
Analyze
Symbol: SDC2
Name: syndecan 2
RGD ID: 734386
HGNC Page HGNC
Description: Exhibits PDZ domain binding activity and identical protein binding activity. Predicted to be involved in cell migration; dendrite morphogenesis; and regulation of dendrite morphogenesis. Localizes to collagen-containing extracellular matrix. Implicated in cleft lip and cleft palate. Biomarker of type 2 diabetes mellitus.
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: CD362; cell surface-associated heparan sulfate proteoglycan 1; fibroglycan; heparan sulfate proteoglycan 1, cell surface-associated; heparan sulfate proteoglycan core protein; HSPG; HSPG1; SYND2; syndecan proteoglycan 2; syndecan-2
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl896,493,813 - 96,611,790 (+)EnsemblGRCh38hg38GRCh38
GRCh38896,493,601 - 96,611,790 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37897,506,041 - 97,624,018 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36897,575,058 - 97,693,213 (+)NCBINCBI36hg18NCBI36
Build 34897,575,057 - 97,693,213NCBI
Celera893,691,860 - 93,810,255 (+)NCBI
Cytogenetic Map8q22.1NCBI
HuRef892,711,380 - 92,829,628 (+)NCBIHuRef
CHM1_1897,546,134 - 97,664,535 (+)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (EXP)
(+)-schisandrin B  (ISO)
1,2-dimethylhydrazine  (ISO)
1-chloro-2,4-dinitrobenzene  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (ISO)
2,6-dinitrotoluene  (ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (EXP)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (ISO)
6-propyl-2-thiouracil  (ISO)
acetamide  (ISO)
aflatoxin B1  (EXP,ISO)
aldehydo-D-glucosamine  (ISO)
all-trans-retinoic acid  (EXP)
amiodarone  (ISO)
ammonium chloride  (ISO)
Aroclor 1254  (ISO)
arsenous acid  (EXP)
benzbromarone  (ISO)
benzo[a]pyrene  (EXP,ISO)
beta-D-glucosamine  (ISO)
bexarotene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
carbamazepine  (EXP)
carbon nanotube  (ISO)
cisplatin  (EXP)
clofibrate  (ISO)
clofibric acid  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (EXP)
corticosterone  (ISO)
coumestrol  (EXP)
cyclosporin A  (EXP)
dexamethasone  (ISO)
diarsenic trioxide  (EXP)
diethylstilbestrol  (ISO)
dioxygen  (EXP,ISO)
diuron  (ISO)
dorsomorphin  (EXP)
edaravone  (ISO)
entinostat  (EXP)
enzyme inhibitor  (EXP)
eugenol  (EXP)
flavonoids  (ISO)
flutamide  (ISO)
folic acid  (ISO)
furan  (ISO)
glafenine  (ISO)
heparin  (EXP)
Heptachlor epoxide  (ISO)
L-ascorbic acid  (ISO)
L-ethionine  (ISO)
losartan  (ISO)
methapyrilene  (ISO)
methylmercury chloride  (EXP)
methylseleninic acid  (EXP)
mitoxantrone  (EXP)
N-nitrosodiethylamine  (ISO)
nefazodone  (ISO)
nickel subsulfide  (ISO)
nickel sulfate  (EXP)
nimesulide  (ISO)
nitric oxide  (ISO)
omeprazole  (ISO)
oxaliplatin  (ISO)
p-toluidine  (ISO)
paclitaxel  (EXP)
paracetamol  (EXP,ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (EXP)
pirinixic acid  (ISO)
potassium dichromate  (ISO)
progesterone  (ISO)
protein kinase inhibitor  (EXP)
quercetin  (EXP)
reactive oxygen species  (ISO)
resveratrol  (EXP)
rotenone  (ISO)
SB 431542  (EXP)
sodium arsenite  (EXP)
Soman  (ISO)
sulforaphane  (EXP)
sunitinib  (EXP)
tert-butyl hydroperoxide  (EXP)
testosterone  (ISO)
tetrachloromethane  (ISO)
thioacetamide  (ISO)
titanium dioxide  (ISO)
topotecan  (ISO)
trichostatin A  (EXP)
trimellitic anhydride  (ISO)
valproic acid  (EXP)
vitamin E  (EXP)
zoledronic acid  (EXP)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:1315572   PMID:2523388   PMID:2745554   PMID:2948951   PMID:7524669   PMID:7551962   PMID:7690138   PMID:8157651   PMID:8187643   PMID:8570206   PMID:8832397   PMID:8889549  
PMID:8997243   PMID:9111037   PMID:9244383   PMID:9259269   PMID:9342064   PMID:9391086   PMID:9660868   PMID:9869645   PMID:10375199   PMID:10446183   PMID:10497173   PMID:10704377  
PMID:10734053   PMID:10772816   PMID:11018053   PMID:11023673   PMID:11024024   PMID:11161813   PMID:11356864   PMID:11373281   PMID:11567105   PMID:11580899   PMID:12036876   PMID:12055189  
PMID:12200971   PMID:12477932   PMID:12676536   PMID:12708751   PMID:12860416   PMID:12860968   PMID:12885232   PMID:14527339   PMID:14674716   PMID:14702039   PMID:14999018   PMID:15183101  
PMID:15297422   PMID:15489334   PMID:15797855   PMID:15846369   PMID:15936998   PMID:16157597   PMID:16253987   PMID:16303743   PMID:16440330   PMID:16817962   PMID:16934308   PMID:16982797  
PMID:16997272   PMID:17035092   PMID:17261577   PMID:17457918   PMID:17516498   PMID:17623663   PMID:18032547   PMID:18093920   PMID:18256285   PMID:18342939   PMID:18599487   PMID:19073173  
PMID:19086053   PMID:19179614   PMID:19288017   PMID:19322201   PMID:19383343   PMID:19450993   PMID:19641225   PMID:19786981   PMID:19822079   PMID:19913121   PMID:19962968   PMID:20006588  
PMID:20181947   PMID:20379614   PMID:20485444   PMID:20628086   PMID:20683009   PMID:20929862   PMID:21036168   PMID:21114861   PMID:21148276   PMID:21289173   PMID:21317913   PMID:21482826  
PMID:21569759   PMID:21813734   PMID:21873635   PMID:21988832   PMID:22170634   PMID:22227189   PMID:22238310   PMID:22437834   PMID:22471946   PMID:22493442   PMID:22550000   PMID:22558273  
PMID:22660413   PMID:22745764   PMID:22881146   PMID:23297089   PMID:23333331   PMID:23455922   PMID:23736812   PMID:23747112   PMID:23975428   PMID:24424718   PMID:24442880   PMID:24447566  
PMID:24472179   PMID:24613844   PMID:24662262   PMID:24736615   PMID:24804215   PMID:24956062   PMID:25544563   PMID:25665578   PMID:25916113   PMID:26018157   PMID:26186194   PMID:26469385  
PMID:26496610   PMID:26972000   PMID:27068509   PMID:27270030   PMID:27609421   PMID:28077445   PMID:28514442   PMID:28753106   PMID:28940845   PMID:29507755   PMID:30562054   PMID:31311305  
PMID:31586073   PMID:31707342   PMID:31930596   PMID:31962098   PMID:32296183   PMID:32814053  


Genomics

Comparative Map Data
SDC2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl896,493,813 - 96,611,790 (+)EnsemblGRCh38hg38GRCh38
GRCh38896,493,601 - 96,611,790 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37897,506,041 - 97,624,018 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36897,575,058 - 97,693,213 (+)NCBINCBI36hg18NCBI36
Build 34897,575,057 - 97,693,213NCBI
Celera893,691,860 - 93,810,255 (+)NCBI
Cytogenetic Map8q22.1NCBI
HuRef892,711,380 - 92,829,628 (+)NCBIHuRef
CHM1_1897,546,134 - 97,664,535 (+)NCBICHM1_1
Sdc2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391532,920,869 - 33,034,867 (+)NCBIGRCm39mm39
GRCm39 Ensembl1532,920,869 - 33,035,081 (+)Ensembl
GRCm381532,920,723 - 33,034,721 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1532,920,723 - 33,034,935 (+)EnsemblGRCm38mm10GRCm38
MGSCv371532,850,478 - 32,964,476 (+)NCBIGRCm37mm9NCBIm37
MGSCv361532,865,312 - 32,979,310 (+)NCBImm8
Celera1533,584,115 - 33,695,490 (+)NCBICelera
Cytogenetic Map15B3.1NCBI
cM Map1513.74NCBI
Sdc2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2764,127,185 - 64,239,885 (+)NCBI
Rnor_6.0 Ensembl771,572,941 - 71,686,044 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0771,572,731 - 71,686,139 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0771,743,895 - 71,857,365 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4768,290,558 - 68,405,183 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1768,311,497 - 68,426,917 (+)NCBI
Celera761,250,356 - 61,362,471 (+)NCBICelera
Cytogenetic Map7q22NCBI
Sdc2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541712,462,354 - 12,564,633 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541712,462,354 - 12,563,374 (+)NCBIChiLan1.0ChiLan1.0
SDC2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1895,314,910 - 95,428,519 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl895,314,910 - 95,428,519 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0893,118,379 - 93,230,803 (+)NCBIMhudiblu_PPA_v0panPan3
SDC2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12940,939,498 - 41,026,694 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2940,939,257 - 41,024,357 (+)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.02941,126,548 - 41,219,188 (+)NCBI
UMICH_Zoey_3.12941,169,044 - 41,261,257 (+)NCBI
UNSW_CanFamBas_1.02941,141,750 - 41,229,172 (+)NCBI
UU_Cfam_GSD_1.02941,600,748 - 41,693,152 (+)NCBI
Sdc2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530338,541,717 - 38,648,722 (-)NCBI
SpeTri2.0NW_00493647045,967,816 - 46,074,820 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SDC2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl440,002,749 - 40,129,697 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1440,003,618 - 40,129,483 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2443,121,719 - 43,248,283 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SDC2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1891,451,808 - 91,570,778 (+)NCBI
ChlSab1.1 Ensembl891,552,647 - 91,568,828 (+)Ensembl
Sdc2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247633,809,850 - 3,920,364 (+)NCBI

Position Markers
D8S1018  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37897,529,889 - 97,530,209UniSTSGRCh37
Celera893,715,760 - 93,716,078UniSTS
Cytogenetic Map8q22-q23UniSTS
HuRef892,735,262 - 92,735,576UniSTS
Marshfield Genetic Map8107.97RGD
Marshfield Genetic Map8107.97UniSTS
SHGC-36183  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37897,566,549 - 97,566,653UniSTSGRCh37
Build 36897,635,725 - 97,635,829RGDNCBI36
Celera893,752,434 - 93,752,538RGD
Cytogenetic Map8q22-q23UniSTS
HuRef892,771,967 - 92,772,071UniSTS
SHGC-52456  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37897,582,242 - 97,582,459UniSTSGRCh37
Build 36897,651,418 - 97,651,635RGDNCBI36
Celera893,768,143 - 93,768,360RGD
Cytogenetic Map8q22-q23UniSTS
HuRef892,787,676 - 92,787,893UniSTS
GeneMap99-G3 RH Map81031.0UniSTS
SHGC-68575  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37897,580,828 - 97,580,962UniSTSGRCh37
Build 36897,650,004 - 97,650,138RGDNCBI36
Celera893,766,729 - 93,766,863RGD
Cytogenetic Map8q22-q23UniSTS
HuRef892,786,262 - 92,786,396UniSTS
TNG Radiation Hybrid Map866176.0UniSTS
RH129475  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37897,622,515 - 97,622,720UniSTSGRCh37
Build 36897,691,691 - 97,691,896RGDNCBI36
Celera893,808,733 - 93,808,938RGD
HuRef892,828,106 - 92,828,311UniSTS
RH45426  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37897,621,622 - 97,621,750UniSTSGRCh37
Build 36897,690,798 - 97,690,926RGDNCBI36
Celera893,807,840 - 93,807,968RGD
Cytogenetic Map8q22-q23UniSTS
HuRef892,827,213 - 92,827,341UniSTS
GeneMap99-GB4 RH Map8440.32UniSTS
RH12464  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37897,623,412 - 97,623,550UniSTSGRCh37
Build 36897,692,588 - 97,692,726RGDNCBI36
Celera893,809,630 - 93,809,768RGD
Cytogenetic Map8q22-q23UniSTS
HuRef892,829,003 - 92,829,141UniSTS
GeneMap99-GB4 RH Map8442.14UniSTS
SHGC-32567  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37897,623,833 - 97,623,982UniSTSGRCh37
Build 36897,693,009 - 97,693,158RGDNCBI36
Celera893,810,051 - 93,810,200RGD
Cytogenetic Map8q22-q23UniSTS
HuRef892,829,424 - 92,829,573UniSTS
GeneMap99-GB4 RH Map8442.24UniSTS
Whitehead-RH Map8581.1UniSTS
NCBI RH Map8994.1UniSTS
RH16471  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37897,622,588 - 97,622,725UniSTSGRCh37
Build 36897,691,764 - 97,691,901RGDNCBI36
Celera893,808,806 - 93,808,943RGD
Cytogenetic Map8q22-q23UniSTS
HuRef892,828,179 - 92,828,316UniSTS
GeneMap99-GB4 RH Map8440.32UniSTS
MARC_21367-21368:1023204259:1  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37897,620,619 - 97,621,680UniSTSGRCh37
Build 36897,689,795 - 97,690,856RGDNCBI36
Celera893,806,837 - 93,807,898RGD
HuRef892,826,210 - 92,827,271UniSTS

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1959
Count of miRNA genes:806
Interacting mature miRNAs:953
Transcripts:ENST00000302190, ENST00000518385, ENST00000519587, ENST00000519914, ENST00000520233, ENST00000521590, ENST00000522911, ENST00000523877
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system visual system adipose tissue appendage entire extraembryonic component pharyngeal arch
High
Medium 2243 2074 1512 595 436 457 3485 1343 3332 380 1276 1474 140 1204 2051 1
Low 99 630 210 29 631 6 867 849 397 33 160 90 31 1 737 3 2
Below cutoff 26 278 1 406 1 3 2 5 5 11 32 1 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_002998 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011517212 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_024447228 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AA114891 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK025488 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK074530 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK097839 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK130131 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK298643 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK298939 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK300067 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AP003477 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AP003548 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC030133 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC049836 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471060 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CK825252 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J04621 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC877279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000302190   ⟹   ENSP00000307046
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl896,493,813 - 96,611,790 (+)Ensembl
RefSeq Acc Id: ENST00000518385   ⟹   ENSP00000429045
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl896,493,813 - 96,610,174 (+)Ensembl
RefSeq Acc Id: ENST00000519587
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl896,493,813 - 96,538,816 (+)Ensembl
RefSeq Acc Id: ENST00000519914   ⟹   ENSP00000428256
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl896,580,349 - 96,610,100 (+)Ensembl
RefSeq Acc Id: ENST00000520233
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl896,493,813 - 96,537,343 (+)Ensembl
RefSeq Acc Id: ENST00000521590   ⟹   ENSP00000429121
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl896,584,945 - 96,609,440 (+)Ensembl
RefSeq Acc Id: ENST00000522911   ⟹   ENSP00000427784
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl896,494,008 - 96,609,643 (+)Ensembl
RefSeq Acc Id: ENST00000523877   ⟹   ENSP00000429662
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl896,586,387 - 96,609,465 (+)Ensembl
RefSeq Acc Id: NM_002998   ⟹   NP_002989
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38896,493,813 - 96,611,790 (+)NCBI
GRCh37897,505,579 - 97,624,037 (+)NCBI
Build 36897,575,058 - 97,693,213 (+)NCBI Archive
HuRef892,711,380 - 92,829,628 (+)ENTREZGENE
CHM1_1897,546,134 - 97,664,535 (+)NCBI
Sequence:
RefSeq Acc Id: XM_011517212   ⟹   XP_011515514
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38896,584,216 - 96,611,767 (+)NCBI
Sequence:
RefSeq Acc Id: XM_024447228   ⟹   XP_024302996
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38896,493,601 - 96,611,767 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_002989   ⟸   NM_002998
- Peptide Label: precursor
- UniProtKB: P34741 (UniProtKB/Swiss-Prot),   A0A024R9D1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011515514   ⟸   XM_011517212
- Peptide Label: isoform X1
- UniProtKB: E9PBI9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_024302996   ⟸   XM_024447228
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSP00000429045   ⟸   ENST00000518385
RefSeq Acc Id: ENSP00000428256   ⟸   ENST00000519914
RefSeq Acc Id: ENSP00000429121   ⟸   ENST00000521590
RefSeq Acc Id: ENSP00000427784   ⟸   ENST00000522911
RefSeq Acc Id: ENSP00000429662   ⟸   ENST00000523877
RefSeq Acc Id: ENSP00000307046   ⟸   ENST00000302190
Protein Domains
4.1m   Syndecan

Promoters
RGD ID:7213831
Promoter ID:EPDNEW_H12661
Type:initiation region
Name:SDC2_1
Description:syndecan 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38896,493,813 - 96,493,873EPDNEW

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 8p23.3-q24.3(chr8:241530-145049449)x3 copy number gain See cases [RCV000051206] Chr8:241530..145049449 [GRCh38]
Chr8:191530..146274835 [GRCh37]
Chr8:181530..146245639 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q22.1-24.3(chr8:95606052-145054775)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053677]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053677]|See cases [RCV000053677] Chr8:95606052..145054775 [GRCh38]
Chr8:96618280..146280161 [GRCh37]
Chr8:96687456..146250965 [NCBI36]
Chr8:8q22.1-24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241530-145054634)x3 copy number gain See cases [RCV000053602] Chr8:241530..145054634 [GRCh38]
Chr8:191530..146280020 [GRCh37]
Chr8:181530..146250824 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:244417-145054775)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053604]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053604]|See cases [RCV000053604] Chr8:244417..145054775 [GRCh38]
Chr8:194417..146280161 [GRCh37]
Chr8:184417..146250965 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q22.1(chr8:92755532-97792132)x1 copy number loss See cases [RCV000054278] Chr8:92755532..97792132 [GRCh38]
Chr8:93767760..98804360 [GRCh37]
Chr8:93836936..98873536 [NCBI36]
Chr8:8q22.1
pathogenic
GRCh38/hg38 8q22.1(chr8:96065893-97276981)x1 copy number loss See cases [RCV000054279] Chr8:96065893..97276981 [GRCh38]
Chr8:97078121..98289209 [GRCh37]
Chr8:97147297..98358385 [NCBI36]
Chr8:8q22.1
pathogenic
GRCh38/hg38 8q22.1-24.3(chr8:94682154-145068656)x3 copy number gain See cases [RCV000134353] Chr8:94682154..145068656 [GRCh38]
Chr8:95694382..146294042 [GRCh37]
Chr8:95763558..146264846 [NCBI36]
Chr8:8q22.1-24.3
pathogenic
GRCh38/hg38 8q21.3-24.23(chr8:86300584-137022587)x3 copy number gain See cases [RCV000135621] Chr8:86300584..137022587 [GRCh38]
Chr8:87312813..138034830 [GRCh37]
Chr8:87381929..138104012 [NCBI36]
Chr8:8q21.3-24.23
pathogenic|likely pathogenic
GRCh38/hg38 8q21.3-24.3(chr8:87931152-145068712)x3 copy number gain See cases [RCV000138551] Chr8:87931152..145068712 [GRCh38]
Chr8:88943380..146294098 [GRCh37]
Chr8:89012496..146264902 [NCBI36]
Chr8:8q21.3-24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241605-145054781)x3 copy number gain See cases [RCV000138643] Chr8:241605..145054781 [GRCh38]
Chr8:191605..146280167 [GRCh37]
Chr8:181605..146250971 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q21.13-24.3(chr8:77480050-145068712)x3 copy number gain See cases [RCV000139036] Chr8:77480050..145068712 [GRCh38]
Chr8:78392286..146294098 [GRCh37]
Chr8:78554841..146264902 [NCBI36]
Chr8:8q21.13-24.3
pathogenic
GRCh38/hg38 8q11.1-24.3(chr8:46031340-139285494)x3 copy number gain See cases [RCV000139539] Chr8:46031340..139285494 [GRCh38]
Chr8:46942962..140297737 [GRCh37]
Chr8:47062127..140366919 [NCBI36]
Chr8:8q11.1-24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:208048-145070385)x3 copy number gain See cases [RCV000141808] Chr8:208048..145070385 [GRCh38]
Chr8:158048..146295771 [GRCh37]
Chr8:148048..146266575 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8p21.3-q24.3(chr8:21291522-145070385)x3 copy number gain See cases [RCV000142021] Chr8:21291522..145070385 [GRCh38]
Chr8:21149033..146295771 [GRCh37]
Chr8:21193313..146266575 [NCBI36]
Chr8:8p21.3-q24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:226452-145068712)x3 copy number gain See cases [RCV000142858] Chr8:226452..145068712 [GRCh38]
Chr8:176452..146294098 [GRCh37]
Chr8:166452..146264902 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q21.13-24.3(chr8:78614077-145054634)x3 copy number gain See cases [RCV000142597] Chr8:78614077..145054634 [GRCh38]
Chr8:79526312..146280020 [GRCh37]
Chr8:79688867..146250824 [NCBI36]
Chr8:8q21.13-24.3
pathogenic
GRCh38/hg38 8p23.3-q24.3(chr8:241530-145054634)x3 copy number gain See cases [RCV000148092] Chr8:241530..145054634 [GRCh38]
Chr8:191530..146280020 [GRCh37]
Chr8:181530..146250824 [NCBI36]
Chr8:8p23.3-q24.3
pathogenic
GRCh38/hg38 8q21.2-24.3(chr8:85765999-145070385)x3 copy number gain See cases [RCV000143659] Chr8:85765999..145070385 [GRCh38]
Chr8:86778228..146295771 [GRCh37]
Chr8:86863079..146266575 [NCBI36]
Chr8:8q21.2-24.3
pathogenic
GRCh37/hg19 8p12-q24.3(chr8:31936551-146295771)x3 copy number gain not provided [RCV000848192] Chr8:31936551..146295771 [GRCh37]
Chr8:8p12-q24.3
pathogenic
GRCh37/hg19 8p23.3-q24.3(chr8:158991-146280828)x3 copy number gain See cases [RCV000447507] Chr8:158991..146280828 [GRCh37]
Chr8:8p23.3-q24.3
pathogenic
GRCh37/hg19 8p23.3-q24.3(chr8:158049-146295771) copy number gain See cases [RCV000510234] Chr8:158049..146295771 [GRCh37]
Chr8:8p23.3-q24.3
pathogenic
GRCh37/hg19 8q21.3-24.3(chr8:93047482-141355635)x3 copy number gain See cases [RCV000511761] Chr8:93047482..141355635 [GRCh37]
Chr8:8q21.3-24.3
pathogenic
GRCh37/hg19 8p23.3-q24.3(chr8:158049-146295771)x3 copy number gain See cases [RCV000511095] Chr8:158049..146295771 [GRCh37]
Chr8:8p23.3-q24.3
pathogenic
GRCh37/hg19 8q21.2-24.3(chr8:86841154-146295771)x3 copy number gain See cases [RCV000511002] Chr8:86841154..146295771 [GRCh37]
Chr8:8q21.2-24.3
pathogenic
GRCh37/hg19 8q21.2-24.3(chr8:86841228-142689874)x3 copy number gain See cases [RCV000510854] Chr8:86841228..142689874 [GRCh37]
Chr8:8q21.2-24.3
pathogenic
GRCh37/hg19 8p23.1-q24.3(chr8:12490999-146295771)x3 copy number gain See cases [RCV000512169] Chr8:12490999..146295771 [GRCh37]
Chr8:8p23.1-q24.3
pathogenic
GRCh37/hg19 8q22.1(chr8:96468763-98522743)x1 copy number loss not provided [RCV000683017] Chr8:96468763..98522743 [GRCh37]
Chr8:8q22.1
uncertain significance
GRCh37/hg19 8q21.2-23.3(chr8:86841154-116518125)x3 copy number gain not provided [RCV000683045] Chr8:86841154..116518125 [GRCh37]
Chr8:8q21.2-23.3
pathogenic
GRCh37/hg19 8p23.3-q24.3(chr8:158048-146295771)x3 copy number gain not provided [RCV000848478] Chr8:158048..146295771 [GRCh37]
Chr8:8p23.3-q24.3
pathogenic
GRCh37/hg19 8p23.3-q24.3(chr8:10213-146293414)x3 copy number gain not provided [RCV000747248] Chr8:10213..146293414 [GRCh37]
Chr8:8p23.3-q24.3
pathogenic
GRCh37/hg19 8p23.3-q24.3(chr8:164984-146293414)x3 copy number gain not provided [RCV000747254] Chr8:164984..146293414 [GRCh37]
Chr8:8p23.3-q24.3
pathogenic
GRCh37/hg19 8q22.1(chr8:97520946-97547130)x1 copy number loss not provided [RCV000747728] Chr8:97520946..97547130 [GRCh37]
Chr8:8q22.1
benign
GRCh37/hg19 8q22.1(chr8:97154645-98155535)x3 copy number gain Leri pleonosteosis [RCV000856633] Chr8:97154645..98155535 [GRCh37]
Chr8:8q22.1
pathogenic
GRCh37/hg19 8q22.1(chr8:96646399-98973327)x3 copy number gain not provided [RCV001006122] Chr8:96646399..98973327 [GRCh37]
Chr8:8q22.1
likely pathogenic
GRCh37/hg19 8q22.1(chr8:95803280-97802022)x3 copy number gain not provided [RCV001259019] Chr8:95803280..97802022 [GRCh37]
Chr8:8q22.1
likely pathogenic

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:10659 AgrOrtholog
COSMIC SDC2 COSMIC
Ensembl Genes ENSG00000169439 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSP00000307046 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000427784 UniProtKB/TrEMBL
  ENSP00000428256 ENTREZGENE, UniProtKB/TrEMBL
  ENSP00000429045 UniProtKB/TrEMBL
  ENSP00000429121 UniProtKB/TrEMBL
  ENSP00000429662 UniProtKB/TrEMBL
Ensembl Transcript ENST00000302190 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000518385 UniProtKB/TrEMBL
  ENST00000519914 ENTREZGENE, UniProtKB/TrEMBL
  ENST00000521590 UniProtKB/TrEMBL
  ENST00000522911 UniProtKB/TrEMBL
  ENST00000523877 UniProtKB/TrEMBL
GTEx ENSG00000169439 GTEx
HGNC ID HGNC:10659 ENTREZGENE
Human Proteome Map SDC2 Human Proteome Map
InterPro Neurexin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Syndecan UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Syndecan-2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Syndecan/Neurexin_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Syndecan_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:6383 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 6383 ENTREZGENE
OMIM 142460 OMIM
PANTHER PTHR10915 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10915:SF6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Syndecan UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PA35589 PharmGKB
PROSITE SYNDECAN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART 4.1m UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A024R9D1 ENTREZGENE, UniProtKB/TrEMBL
  E5RHU3_HUMAN UniProtKB/TrEMBL
  E5RJB8_HUMAN UniProtKB/TrEMBL
  E7ESK6_HUMAN UniProtKB/TrEMBL
  E9PBI9 ENTREZGENE, UniProtKB/TrEMBL
  P34741 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary B3KQA3 UniProtKB/Swiss-Prot
  Q6PIS6 UniProtKB/Swiss-Prot
  Q9H6V1 UniProtKB/Swiss-Prot