Sdc3 (syndecan 3) - Rat Genome Database

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Gene: Sdc3 (syndecan 3) Rattus norvegicus
Analyze
Symbol: Sdc3
Name: syndecan 3
RGD ID: 621486
Description: Predicted to enable identical protein binding activity. Involved in cell adhesion and regulation of cell migration. Located in axon and plasma membrane. Part of protein-containing complex. Human ortholog(s) of this gene implicated in obesity. Orthologous to human SDC3 (syndecan 3); PARTICIPATES IN melanocortin system pathway; syndecan signaling pathway; cell-extracellular matrix signaling pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: N-syndecan; neuroglycan; SYND3; syndecan-3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85148,249,792 - 148,282,524 (+)NCBIGRCr8
mRatBN7.25142,965,659 - 142,998,390 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5142,965,591 - 142,996,480 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5145,664,910 - 145,697,641 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05147,434,735 - 147,467,464 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05147,431,294 - 147,464,044 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05148,923,098 - 148,956,404 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5148,923,098 - 148,956,404 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05152,628,005 - 152,660,586 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45149,486,028 - 149,518,849 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15149,497,976 - 149,528,956 (-)NCBI
Celera5141,427,897 - 141,460,387 (+)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Sdc3Ratobesity  ISOSDC3 (Homo sapiens)8554872ClinVar Annotator: match by term: Obesity and association withClinVarPMID:17018662
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Sdc3Ratobesity  ISOSDC3 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTD 
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Sdc3Ratobesity  ISOSDC3 (Homo sapiens)7240710 OMIM 

1 to 20 of 105 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Sdc3Rat1,2-dimethylhydrazine affects expressionISOSdc3 (Mus musculus)64804641 and 2-Dimethylhydrazine affects the expression of SDC3 mRNACTDPMID:22206623
Sdc3Rat1,2-dimethylhydrazine multiple interactionsISOSdc3 (Mus musculus)6480464[1 and 2-Dimethylhydrazine co-treated with Folic Acid] results in increased expression of SDC3 mRNACTDPMID:22206623
Sdc3Rat17beta-estradiol multiple interactionsEXP 6480464[bisphenol A co-treated with Estradiol] results in increased expression of SDC3 mRNA and Dactinomycin inhibits the reaction [Estradiol results in increased expression of SDC3 mRNA]CTDPMID:11024013 and PMID:26496021
Sdc3Rat17beta-estradiol increases expressionISOSDC3 (Homo sapiens)6480464Estradiol results in increased expression of SDC3 mRNACTDPMID:31614463
Sdc3Rat17beta-estradiol decreases expressionISOSdc3 (Mus musculus)6480464Estradiol results in decreased expression of SDC3 mRNACTDPMID:39298647
Sdc3Rat17beta-estradiol multiple interactionsISOSDC3 (Homo sapiens)6480464[Estradiol co-treated with TGFB1 protein] results in increased expression of SDC3 mRNACTDPMID:30165855
Sdc3Rat17beta-estradiol increases expressionEXP 6480464Estradiol results in increased expression of SDC3 mRNA and Estradiol results in increased expression of SDC3 proteinCTDPMID:11024013 and PMID:35192832
Sdc3Rat17beta-hydroxy-5alpha-androstan-3-one decreases expressionISOSdc3 (Mus musculus)6480464Dihydrotestosterone results in decreased expression of SDC3 mRNACTDPMID:17023530
Sdc3Rat2,3,7,8-tetrachlorodibenzodioxine affects expressionEXP 6480464Tetrachlorodibenzodioxin affects the expression of SDC3 mRNACTDPMID:15977195
Sdc3Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionEXP 6480464Tetrachlorodibenzodioxin results in increased expression of SDC3 mRNACTDPMID:34747641
Sdc3Rat2,3,7,8-tetrachlorodibenzodioxine affects expressionISOSdc3 (Mus musculus)6480464Tetrachlorodibenzodioxin affects the expression of SDC3 mRNACTDPMID:28922406
Sdc3Rat2,3,7,8-tetrachlorodibenzodioxine multiple interactionsEXP 6480464[Tetrachlorodibenzodioxin co-treated with LEP protein] affects the expression of SDC3 mRNACTDPMID:15977195
Sdc3Rat2,3,7,8-Tetrachlorodibenzofuran decreases expressionEXP 64804642 more ...CTDPMID:32109520
Sdc3Rat2,4-dibromophenyl 2,4,5-tribromophenyl ether affects expressionISOSdc3 (Mus musculus)64804642 more ...CTDPMID:38648751
Sdc3Rat2-amino-2-deoxy-D-galactopyranose increases expressionEXP 6480464Galactosamine results in increased expression of SDC3 mRNACTDPMID:12057922
Sdc3Rat4,4'-sulfonyldiphenol decreases expressionISOSdc3 (Mus musculus)6480464bisphenol S results in decreased expression of SDC3 mRNACTDPMID:39298647
Sdc3Rat4,4'-sulfonyldiphenol multiple interactionsEXP 6480464[bisphenol A co-treated with bisphenol F co-treated with bisphenol S] results in decreased expression of SDC3 mRNACTDPMID:36041667
Sdc3Rat6-propyl-2-thiouracil increases expressionEXP 6480464Propylthiouracil results in increased expression of SDC3 mRNACTDPMID:24780913 and PMID:30047161
Sdc3Ratacetamide increases expressionEXP 6480464acetamide results in increased expression of SDC3 mRNACTDPMID:31881176
Sdc3Ratacrylamide decreases expressionISOSDC3 (Homo sapiens)6480464Acrylamide results in decreased expression of SDC3 mRNACTDPMID:32763439

1 to 20 of 105 rows

Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Sdc3Ratcell adhesion  IDA 625469 RGD 
Sdc3Ratcell migration involved_inIBAFB:FBgn0010415 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Sdc3Ratregulation of cell migration involved_inIDA 10047387PMID:24555114CACAO 

Cellular Component
1 to 13 of 13 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Sdc3Rataxon  IDA 1599282 RGD 
Sdc3Ratcell surface is_active_inIBAMGI:1349162 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Sdc3Ratmembrane located_inIEAInterPro:IPR0010501600115GO_REF:0000002InterProGO_REF:0000002
Sdc3Ratmembrane located_inIEAUniProtKB-KW:KW-04721600115GO_REF:0000043UniProtGO_REF:0000043
Sdc3Ratmembrane located_inIDA 8553809PMID:15603739UniProt 
Sdc3Ratmembrane located_inIEAUniProtKB-SubCell:SL-01621600115GO_REF:0000044UniProtGO_REF:0000044
Sdc3Ratmicrospike located_inISSUniProtKB:Q645191600115GO_REF:0000024UniProtGO_REF:0000024
Sdc3Ratmicrospike located_inISOSdc3 (Mus musculus)1624291 PMID:12084985RGDPMID:12084985
Sdc3Ratmicrospike located_inIEAUniProtKB:Q64519 and ensembl:ENSMUSP000000658771600115GO_REF:0000107EnsemblGO_REF:0000107
Sdc3Ratplasma membrane located_inIEAUniProtKB-SubCell:SL-00391600115GO_REF:0000044UniProtGO_REF:0000044
Sdc3Ratplasma membrane located_inIEAUniProtKB-KW:KW-10031600115GO_REF:0000043UniProtGO_REF:0000043
Sdc3Ratplasma membrane located_inIDA 10043820PMID:8175719UniProt 
Sdc3Ratprotein-containing complex  IDA 1599282 RGD 
1 to 13 of 13 rows

Molecular Function
1 to 11 of 11 rows

  
1 to 11 of 11 rows

RGD Manual Annotations


  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Sdc3Ratmelanocortin system pathway   ISOSDC3 (Homo sapiens)1357925 RGD 

Imported Annotations - KEGG (archival)

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Sdc3Ratcell-extracellular matrix signaling pathway  IEA 6907045 KEGGrno:04512
Sdc3Ratmalaria pathway  IEA 6907045 KEGGrno:05144

Imported Annotations - PID (archival)

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Sdc3Ratsyndecan signaling pathway  ISOSDC3 (Homo sapiens)6484113 PIDPID:200198

1 to 20 of 20 rows
#
Reference Title
Reference Citation
1. Pleiotrophin/heparin-binding growth-associated molecule as a mitogen of rat hepatocytes and its role in regeneration and development of liver. Asahina K, etal., Am J Pathol 2002 Jun;160(6):2191-205.
2. A novel role for syndecan-3 in angiogenesis. De Rossi G and Whiteford JR, F1000Res. 2013 Dec 9;2:270. doi: 10.12688/f1000research.2-270.v1. eCollection 2013.
3. Schwann cell adhesion to a novel heparan sulfate binding site in the N-terminal domain of alpha 4 type V collagen is mediated by syndecan-3. Erdman R, etal., J Biol Chem 2002 Mar 1;277(9):7619-25.
4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. Bipartite interaction between neurofibromatosis type I protein (neurofibromin) and syndecan transmembrane heparan sulfate proteoglycans. Hsueh YP, etal., J Neurosci. 2001 Jun 1;21(11):3764-70.
6. Osteoblast recruitment and bone formation enhanced by cell matrix-associated heparin-binding growth-associated molecule (HB-GAM). Imai S, etal., J Cell Biol. 1998 Nov 16;143(4):1113-28.
7. Semaphorin 5A is a bifunctional axon guidance cue regulated by heparan and chondroitin sulfate proteoglycans. Kantor DB, etal., Neuron. 2004 Dec 16;44(6):961-75.
8. The Conserved Phenylalanine in the Transmembrane Domain Enhances Heteromeric Interactions of Syndecans. Kwon MJ, etal., J Biol Chem. 2016 Jan 8;291(2):872-81. doi: 10.1074/jbc.M115.685040. Epub 2015 Nov 24.
9. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
10. Expression of syndecan-1 and -3 during embryogenesis of the central nervous system in relation to binding with midkine. Nakanishi T, etal., J Biochem. 1997 Feb;121(2):197-205.
11. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
12. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
13. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
14. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
15. Isolation of a neuronal cell surface receptor of heparin binding growth-associated molecule (HB-GAM). Identification as N-syndecan (syndecan-3). Raulo E, etal., J Biol Chem. 1994 Apr 29;269(17):12999-3004.
16. GOA pipeline RGD automated data pipeline
17. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
18. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
19. The critical role of the melanocortin system in the control of energy balance. Seeley RJ, etal., Annu Rev Nutr 2004;24:133-49.
20. Syndecan-3 and perlecan are differentially expressed by progenitors and mature oligodendrocytes and accumulate in the extracellular matrix. Winkler S, etal., J Neurosci Res 2002 Aug 15;69(4):477-87.
1 to 20 of 20 rows
PMID:1556152   PMID:9006931   PMID:12084985   PMID:16384863   PMID:17368428   PMID:18093920   PMID:18599487   PMID:24498267   PMID:25931508   PMID:27068509   PMID:33170350  



Sdc3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85148,249,792 - 148,282,524 (+)NCBIGRCr8
mRatBN7.25142,965,659 - 142,998,390 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5142,965,591 - 142,996,480 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5145,664,910 - 145,697,641 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05147,434,735 - 147,467,464 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05147,431,294 - 147,464,044 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05148,923,098 - 148,956,404 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5148,923,098 - 148,956,404 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05152,628,005 - 152,660,586 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45149,486,028 - 149,518,849 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15149,497,976 - 149,528,956 (-)NCBI
Celera5141,427,897 - 141,460,387 (+)NCBICelera
Cytogenetic Map5q36NCBI
SDC3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38130,869,466 - 30,909,735 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl130,869,466 - 30,908,758 (-)EnsemblGRCh38hg38GRCh38
GRCh37131,342,313 - 31,381,605 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36131,118,567 - 31,154,067 (-)NCBINCBI36Build 36hg18NCBI36
Build 34131,015,074 - 31,050,573NCBI
Celera129,598,020 - 29,607,292 (-)NCBICelera
Cytogenetic Map1p35.2NCBI
HuRef129,448,414 - 29,487,313 (-)NCBIHuRef
CHM1_1131,458,707 - 31,467,979 (-)NCBICHM1_1
T2T-CHM13v2.0130,721,742 - 30,761,962 (-)NCBIT2T-CHM13v2.0
Sdc3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394130,519,855 - 130,553,629 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4130,519,848 - 130,553,630 (+)EnsemblGRCm39 Ensembl
GRCm384130,792,537 - 130,826,318 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4130,792,537 - 130,826,319 (+)EnsemblGRCm38mm10GRCm38
MGSCv374130,348,452 - 130,382,233 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364130,064,654 - 130,098,393 (+)NCBIMGSCv36mm8
Celera4128,959,630 - 128,992,669 (+)NCBICelera
Cytogenetic Map4D2.2NCBI
cM Map463.63NCBI
Sdc3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554529,442,759 - 9,452,027 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554529,442,860 - 9,479,776 (-)NCBIChiLan1.0ChiLan1.0
SDC3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21195,930,956 - 195,970,722 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11195,048,132 - 195,087,879 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0130,143,050 - 30,182,795 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1131,169,002 - 31,181,000 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl131,169,002 - 31,178,265 (-)Ensemblpanpan1.1panPan2
SDC3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1270,081,287 - 70,090,290 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl270,056,458 - 70,088,426 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha266,631,617 - 66,667,833 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0270,616,352 - 70,652,558 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl270,616,352 - 70,652,573 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1267,451,512 - 67,487,703 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0268,450,471 - 68,486,798 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0269,445,397 - 69,485,652 (+)NCBIUU_Cfam_GSD_1.0
Sdc3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505848,375,754 - 48,389,777 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647414,204,118 - 14,233,635 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647414,203,322 - 14,209,187 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SDC3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl687,495,045 - 87,507,235 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1687,495,041 - 87,535,689 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2681,263,544 - 81,287,288 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103225235
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120101,931,276 - 101,970,626 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20101,961,371 - 101,970,950 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603314,685,587 - 14,688,871 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sdc3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476414,316,799 - 14,353,735 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476414,316,727 - 14,353,735 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

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Variants in Sdc3
152 total Variants


Assembly: Rnor_6.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain Variant Page
5 148952930 148952931 A G snv ACI/N (MCW), Buf/N (MCW), WN/N (MCW), MR/N (MCW), WKY/N (MCW), M520/N (MCW) View more Information

Predicted Target Of
Summary Value
Count of predictions:588
Count of miRNA genes:237
Interacting mature miRNAs:300
Transcripts:ENSRNOT00000048781
Prediction methods:Microtar, 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.


1 to 10 of 41 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)597059760147465714Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5111416838156416838Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)594858972143070159Rat
70156Niddm30Non-insulin dependent diabetes mellitus QTL 303.98blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)5129132447151006154Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
1331803Rf32Renal function QTL 322.798kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)5129132428143070159Rat

1 to 10 of 41 rows
Sdc3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25142,994,052 - 142,994,279 (+)MAPPERmRatBN7.2
Rnor_6.05148,952,067 - 148,952,293NCBIRnor6.0
Rnor_5.05152,656,249 - 152,656,475UniSTSRnor5.0
RGSC_v3.45149,490,139 - 149,490,365UniSTSRGSC3.4
Celera5141,456,050 - 141,456,276UniSTS
Cytogenetic Map5q36UniSTS




alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31



Ensembl Acc Id: ENSRNOT00000048781   ⟹   ENSRNOP00000041634
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5142,965,591 - 142,996,480 (+)Ensembl
Rnor_6.0 Ensembl5148,923,098 - 148,956,404 (+)Ensembl
RefSeq Acc Id: NM_053893   ⟹   NP_446345
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85148,249,792 - 148,282,524 (+)NCBI
mRatBN7.25142,965,659 - 142,998,390 (+)NCBI
Rnor_6.05148,923,098 - 148,956,404 (+)NCBI
Rnor_5.05152,628,005 - 152,660,586 (+)NCBI
RGSC_v3.45149,486,028 - 149,518,849 (-)RGD
Celera5141,427,897 - 141,460,387 (+)RGD
Sequence:
Protein RefSeqs NP_446345 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB03284 (Get FASTA)   NCBI Sequence Viewer  
  AAB18192 (Get FASTA)   NCBI Sequence Viewer  
  EDL80599 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000041634
GenBank Protein P33671 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_446345   ⟸   NM_053893
- Peptide Label: precursor
- UniProtKB: P97614 (UniProtKB/Swiss-Prot),   P33671 (UniProtKB/Swiss-Prot),   G3V9B7 (UniProtKB/TrEMBL),   A6ISP8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000041634   ⟸   ENSRNOT00000048781
Neurexin/syndecan/glycophorin C

Name Modeler Protein Id AA Range Protein Structure
AF-P33671-F1-model_v2 AlphaFold P33671 1-442 view protein structure


eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

RGD ID:13694086
Promoter ID:EPDNEW_R4610
Type:initiation region
Name:Sdc3_1
Description:syndecan 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05148,923,080 - 148,923,140EPDNEW


1 to 22 of 22 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-39737 BioCyc
Ensembl Genes ENSRNOG00000011927 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000048781 ENTREZGENE
InterPro Neurexin-like UniProtKB/Swiss-Prot
  Syndecan UniProtKB/Swiss-Prot
  Syndecan/Neurexin_dom UniProtKB/Swiss-Prot
  Syndecan_CS UniProtKB/Swiss-Prot
KEGG Report rno:116673 UniProtKB/Swiss-Prot
NCBI Gene 116673 ENTREZGENE
PANTHER PTHR10915 UniProtKB/Swiss-Prot
  PTHR10915:SF7 UniProtKB/Swiss-Prot
Pfam Syndecan UniProtKB/Swiss-Prot
PhenoGen Sdc3 PhenoGen
PROSITE SYNDECAN UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000011927 RatGTEx
SMART 4.1m UniProtKB/Swiss-Prot
UniProt A6ISP8 ENTREZGENE, UniProtKB/TrEMBL
  G3V9B7 ENTREZGENE, UniProtKB/TrEMBL
  P33671 ENTREZGENE
  P97614 ENTREZGENE
  SDC3_RAT UniProtKB/Swiss-Prot
UniProt Secondary P97614 UniProtKB/Swiss-Prot
1 to 22 of 22 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-01-20 Sdc3  syndecan 3      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Sdc3  syndecan 3      Symbol and Name status set to provisional 70820 PROVISIONAL

Note Type Note Reference
gene_function cell adhesion molecule 625469
gene_physical_interaction interacts with a high affinity heparin binding site in the non-collagenous N-terminal domain (NTD) of the alpha4(V) collagen chain and allows Schwann cell adhesion and migration on collagen matrices 625469
gene_process may mediate adhesion-dependent signaling 625469
gene_product transmembrane heparan sulfate proteoglycan 625469