Sdc2 (syndecan 2) - Rat Genome Database

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Advanced Search (OLGA)
Gene: Sdc2 (syndecan 2) Mus musculus
Analyze
Symbol: Sdc2
Name: syndecan 2
RGD ID: 734387
MGI Page MGI
Description: Predicted to enable PDZ domain binding activity and identical protein binding activity. Involved in regulation of dendrite morphogenesis. Predicted to be located in neuronal cell body and plasma membrane. Predicted to be active in cell surface. Is expressed in several structures, including cranium; embryo mesenchyme; genitourinary system; jaw; and retina. Human ortholog(s) of this gene implicated in cleft lip and cleft palate. Orthologous to human SDC2 (syndecan 2).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 4833414L08Rik; AA960457; fibro; fibroglycan; heparan sulfate proteoglycan 1, cell surface-associated (fibroglycan); heparan sulfate proteoglycan core protein; Hsp; HSPG; Hspg1; Syn; Synd2; syndecan-2
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391532,920,869 - 33,034,867 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1532,920,869 - 33,035,081 (+)EnsemblGRCm39 Ensembl
GRCm381532,920,723 - 33,034,721 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1532,920,723 - 33,034,935 (+)EnsemblGRCm38mm10GRCm38
MGSCv371532,850,478 - 32,964,476 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361532,865,312 - 32,979,310 (+)NCBIMGSCv36mm8
Celera1533,584,115 - 33,695,490 (+)NCBICelera
Cytogenetic Map15B3.1NCBI
cM Map1513.74NCBI
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  (ISO)
(+)-schisandrin B  (ISO)
(1->4)-beta-D-glucan  (EXP)
1,2-dimethylhydrazine  (EXP)
1-chloro-2,4-dinitrobenzene  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (EXP)
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  (EXP)
4,4'-sulfonyldiphenol  (EXP)
4-hydroxyphenyl retinamide  (EXP)
5-aza-2'-deoxycytidine  (ISO)
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  (ISO)
amiodarone  (ISO)
ammonium chloride  (ISO)
aristolochic acid A  (ISO)
Aroclor 1254  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
atazanavir sulfate  (ISO)
benzbromarone  (ISO)
benzo[a]pyrene  (EXP,ISO)
beta-D-glucosamine  (ISO)
bexarotene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bisphenol F  (EXP,ISO)
cadmium dichloride  (ISO)
carbamazepine  (ISO)
carbon nanotube  (EXP)
chenodeoxycholic acid  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
clofibric acid  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
corticosterone  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
deoxycholic acid  (ISO)
dexamethasone  (EXP)
diallyl trisulfide  (ISO)
diarsenic trioxide  (ISO)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
diuron  (ISO)
dorsomorphin  (ISO)
edaravone  (ISO)
entinostat  (ISO)
enzyme inhibitor  (ISO)
eugenol  (ISO)
flavonoids  (ISO)
flutamide  (ISO)
folic acid  (EXP)
FR900359  (ISO)
furan  (ISO)
glafenine  (ISO)
glycochenodeoxycholic acid  (ISO)
glycocholic acid  (ISO)
glycodeoxycholic acid  (ISO)
heparin  (ISO)
Heptachlor epoxide  (EXP)
L-ascorbic acid  (ISO)
L-ethionine  (ISO)
losartan  (ISO)
methapyrilene  (ISO)
methidathion  (EXP)
methylmercury chloride  (ISO)
methylseleninic acid  (ISO)
mitoxantrone  (ISO)
N-nitrosodiethylamine  (ISO)
nefazodone  (ISO)
nickel subsulfide  (ISO)
nickel sulfate  (ISO)
nimesulide  (ISO)
nitric oxide  (EXP)
omeprazole  (ISO)
oxaliplatin  (ISO)
ozone  (EXP)
p-toluidine  (ISO)
paclitaxel  (ISO)
paracetamol  (EXP,ISO)
perfluorobutyric acid  (ISO)
perfluorohexanesulfonic acid  (EXP)
perfluorooctane-1-sulfonic acid  (EXP)
perfluorooctanoic acid  (ISO)
phenobarbital  (EXP)
phenylmercury acetate  (ISO)
pirinixic acid  (EXP,ISO)
potassium dichromate  (EXP)
progesterone  (EXP,ISO)
protein kinase inhibitor  (ISO)
quercetin  (ISO)
reactive oxygen species  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
senecionine  (EXP)
sodium arsenite  (EXP,ISO)
Soman  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
thioacetamide  (ISO)
thiram  (ISO)
titanium dioxide  (EXP)
topotecan  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (EXP)
valproic acid  (ISO)
vitamin E  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Syndecan-2 regulates transforming growth factor-beta signaling. Chen L, etal., J Biol Chem. 2004 Apr 16;279(16):15715-8. Epub 2004 Feb 19.
2. Genomic screening identifies novel linkages and provides further evidence for a role of MYH9 in nonsyndromic cleft lip and palate. Chiquet BT, etal., Eur J Hum Genet. 2009 Feb;17(2):195-204. doi: 10.1038/ejhg.2008.149. Epub 2008 Aug 20.
3. Gene expression profile in diabetic KK/Ta mice. Fan Q, etal., Kidney Int. 2003 Dec;64(6):1978-85.
4. Localisation of specific heparan sulfate proteoglycans during the proliferative phase of brain development. Ford-Perriss M, etal., Dev Dyn 2003 Jun;227(2):170-84.
5. Comparison of expression patterns between CREB family transcription factor OASIS and proteoglycan core protein genes during murine tooth development. Hikake T, etal., Anat Embryol (Berl) 2003 Apr;206(5):373-80. Epub 2003 Mar 21.
6. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
7. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
8. MGDs mouse GO annotations MGD data from the GO Consortium
9. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
10. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
11. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
12. Mouse MP Annotation Import Pipeline RGD automated import pipeline
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Multiple mouse chromosomal loci for dynein-based motility. Vaughan KT, etal., Genomics 1996 Aug 15;36(1):29-38.
15. K-glypican: a novel GPI-anchored heparan sulfate proteoglycan that is highly expressed in developing brain and kidney. Watanabe K, etal., J Cell Biol 1995 Sep;130(5):1207-18.
Additional References at PubMed
PMID:1765004   PMID:2523388   PMID:7812048   PMID:7959737   PMID:8006086   PMID:8025245   PMID:8027524   PMID:8187643   PMID:8211130   PMID:8626800   PMID:8884266   PMID:9143490  
PMID:9276666   PMID:9920829   PMID:10051567   PMID:10349636   PMID:10433923   PMID:10725249   PMID:10922068   PMID:11018053   PMID:11042159   PMID:11076861   PMID:11580899   PMID:11784020  
PMID:11931647   PMID:11961095   PMID:12073610   PMID:12112370   PMID:12477932   PMID:12598530   PMID:12665470   PMID:14642532   PMID:14999018   PMID:15368439   PMID:15381701   PMID:15489334  
PMID:15752734   PMID:15782199   PMID:16141072   PMID:16141073   PMID:16357320   PMID:16574663   PMID:16989989   PMID:17041758   PMID:17277743   PMID:17623663   PMID:17681770   PMID:17870067  
PMID:18023262   PMID:18287559   PMID:18973680   PMID:19641225   PMID:19906978   PMID:20929862   PMID:21267068   PMID:21555464   PMID:21677750   PMID:21820515   PMID:21873635   PMID:22407321  
PMID:22493442   PMID:22550000   PMID:23233348   PMID:23341629   PMID:23924348   PMID:23986479   PMID:24194600   PMID:24472179   PMID:25201875   PMID:25286301   PMID:26116392   PMID:27626380  
PMID:28031321   PMID:28661485   PMID:30237242   PMID:30952866   PMID:31146259   PMID:32201365   PMID:32220631   PMID:32541007   PMID:32764936   PMID:34355516   PMID:34360683   PMID:34767029  
PMID:35139425   PMID:35181688   PMID:36212522   PMID:37408198   PMID:38355793  


Genomics

Comparative Map Data
Sdc2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391532,920,869 - 33,034,867 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1532,920,869 - 33,035,081 (+)EnsemblGRCm39 Ensembl
GRCm381532,920,723 - 33,034,721 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1532,920,723 - 33,034,935 (+)EnsemblGRCm38mm10GRCm38
MGSCv371532,850,478 - 32,964,476 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361532,865,312 - 32,979,310 (+)NCBIMGSCv36mm8
Celera1533,584,115 - 33,695,490 (+)NCBICelera
Cytogenetic Map15B3.1NCBI
cM Map1513.74NCBI
SDC2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38896,493,813 - 96,611,790 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl896,493,813 - 96,611,790 (+)EnsemblGRCh38hg38GRCh38
GRCh37897,506,041 - 97,624,018 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36897,575,058 - 97,693,213 (+)NCBINCBI36Build 36hg18NCBI36
Build 34897,575,057 - 97,693,213NCBI
Celera893,691,860 - 93,810,255 (+)NCBICelera
Cytogenetic Map8q22.1NCBI
HuRef892,711,380 - 92,829,628 (+)NCBIHuRef
CHM1_1897,546,134 - 97,664,535 (+)NCBICHM1_1
T2T-CHM13v2.0897,619,532 - 97,737,516 (+)NCBIT2T-CHM13v2.0
Sdc2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8766,012,405 - 66,125,101 (+)NCBIGRCr8
mRatBN7.2764,127,185 - 64,239,885 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl764,127,110 - 64,241,081 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx766,016,363 - 66,129,168 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0768,218,571 - 68,331,380 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0768,008,023 - 68,120,333 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0771,572,731 - 71,686,139 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl771,572,941 - 71,686,044 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0771,743,895 - 71,857,365 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4768,290,558 - 68,405,183 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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
NHGRI_mPanPan1-v27113,822,721 - 113,937,524 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1889,361,614 - 89,478,168 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0893,118,379 - 93,230,803 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1895,314,910 - 95,428,519 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl895,314,910 - 95,428,519 (+)Ensemblpanpan1.1panPan2
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 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12941,169,044 - 41,261,257 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02941,141,750 - 41,229,172 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02941,600,748 - 41,693,152 (+)NCBIUU_Cfam_GSD_1.0
Sdc2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530338,541,717 - 38,648,722 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647045,967,303 - 46,074,812 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647045,967,816 - 46,074,820 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SDC2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl440,001,395 - 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 - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1891,451,808 - 91,570,778 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl891,552,647 - 91,568,828 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603949,216,156 - 49,335,471 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sdc2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247633,809,569 - 3,919,346 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247633,809,850 - 3,920,364 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Sdc2
4264 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:928
Count of miRNA genes:541
Interacting mature miRNAs:686
Transcripts:ENSMUST00000022871, ENSMUST00000147013
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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
11252136Modvl4_mmodifier of vacuolated lens (mouse)15562049439620614Mouse
27226777Tibl8_mtibia length 8, 5 week (mouse)15692948184584201Mouse
1302165Yv_myellow value (mouse)Not determined151384700647847148Mouse
27226773Tibl16_mtibia length 16, 10 week (mouse)15692948175871849Mouse
1301406Egrd2_mearly growth rate (mouse)Not determined152631178060311880Mouse
1301020Pheo_mpheomelanin (mouse)Not determined151384700647847148Mouse
4141358Ath22_matherosclerosis 22 (mouse)Not determined346465237464652Mouse
10412172Habiir5_mhyperoxic acute lung injury imprinted region 5 (mouse)Not determined15927302243311880Mouse
4142252Tailaq4_mtail length adjusted QTL 4 (mouse)Not determined348969478601286Mouse
1301760Dob9_mdietary obesity 9 (mouse)Body fat amountadiposity index152603568037781301Mouse
27226759Feml17_mfemur length 17, 10 week (mouse)15762948155263396Mouse
27095940Ulnl8_mulna length 8, 10 week (mouse)15722948155263396Mouse
27226755Feml22_mfemur length 22, 16 week (mouse)15762948159271849Mouse
26884409Bzwq16_mbi-zygomatic width QTL 16, 16 week (mouse)15612948138000244Mouse
26884412Bzwq10_mbi-zygomatic width QTL 10, 10 week (mouse)15612948171471849Mouse
1301557Bbaa22_mB.burgdorferi-associated arthritis 22 (mouse)Not determined152446257258462805Mouse
1301433Rapop5_mradiation-induced apoptosis 5 (mouse)Not determined15927302279474762Mouse
1301951Eila3_methanol induced locomotor activity 3 (mouse)Not determined151492758748927756Mouse
27226800Scvln20_msacral vertebrae length 2, 16 week (mouse)152660008666371849Mouse
26884392Humsd8_mhumerus midshaft diameter 8, 16 week (mouse)152930014676084200Mouse
4141192Ssrq2_mstress response QTL 2 (mouse)Not determined927302256186850Mouse
1300772Bglq16_mbody growth late QTL 16 (mouse)Not determined152631178060311880Mouse
26884387Skwq8_mskull length QTL 8, 10 week (mouse)15612948168271849Mouse
26884384Skwq12_mskull length QTL 12, 16 week (mouse)15612948150763396Mouse
27226786Feml11_mfemur length 11, 5 week (mouse)15612948175871849Mouse
4141952W3q7_mweight 3 weeks QTL 7 (mouse)Not determined348969478601286Mouse
26884442Sklq6_mskull length QTL 6, 5 week (mouse)156129481100797881Mouse
27226717Tibw4_mtibia width 4, proximal, 10 week (mouse)15612948178684200Mouse
1357526Hyplip2_mhyperlipidemia 2 (mouse)Not determined1512402203102896555Mouse
26884439Sklq11_mskull length QTL 11, 10 week (mouse)15812948447663396Mouse
4142448Tailq6_mtail length QTL 6 (mouse)Not determined348969478601286Mouse
1357659Epfpq4_mepididymal fat percentage QTL 4 (mouse)Not determined15348969478601286Mouse
4141423Nstr2_mnerve sheath tumor resistance QTL 2 (mouse)Not determined1492758748927756Mouse
26884425Cvht2_mcranial vault height 2, 5 week (mouse)1528800146102008435Mouse
26884429Zlq6_mzygomatic length QTL 6, 10 week (mouse)15682948144963396Mouse
1301450Bpq6_mblood pressure QTL 6 (mouse)Not determined152828264662282739Mouse
14928313Manh78_mmandible shape 78 (mouse)152148464155484641Mouse
26884417Bzwq4_mbi-zygomatic width QTL 4, 5 week (mouse)15612948172471849Mouse
12859288Criq1_mCitrobacter rodentium infection QTL 1 (mouse)151603395450033954Mouse
1357512Bsbob5_mBSB obesity 5 (mouse)Not determined152828264662282739Mouse
26884423Zlq10_mzygomatic length QTL 10, 16 week (mouse)152060008650763396Mouse
12859289Criq3_mCitrobacter rodentium infection QTL 3 (mouse)152259376556593765Mouse
4141409Radsvq1_mradiation sensitivity QTL 1 (mouse)Not determined2548497859484978Mouse
1357514Mbis3_mMycobacterium bovis-induced systemic lupus erythematosus 3 (mouse)Not determined162631178060311880Mouse
1558985Eae32_mexperimental allergic encephalomyelitis susceptibility 32 (mouse)Not determined1532578416103425899Mouse
27095932Ulnl11_mulna length 11, 16 week (mouse)15612948176384200Mouse
1357559Scfq2_msubcutaneous fat pad weight QTL 2 (mouse)Not determined15348969478601286Mouse
1302007Bbaa14_mB.burgdorferi-associated arthritis 14 (mouse)Not determined151492758748927756Mouse
1301499Bdln2_mbody length 2 (mouse)Not determined151564534349645470Mouse
27095922Pglq11_mpelvic girdle length QTL 11, 10 week (mouse)15812948438763395Mouse
4142160Femwf10_mfemur work to failure 10 (mouse)Not determined2289301456893160Mouse
10401902Sicd2_mseizure-induced cell death 2 (mouse)Not determined15347438971197538Mouse
27226734Tibmd5_mtibia midshaft diameter 5, 10 week (mouse)15612948186684201Mouse
1301345Bgeq14_mbody growth early QTL 14 (mouse)Not determined152631178060311880Mouse
1300967Bdt6_mbone density traits 6 (mouse)Not determined152529580659295928Mouse
4140994Shali3_msurvival time to hyperoxic acute lung injury 3 (mouse)Not determined927302243311880Mouse
27226721Tibw8_mtibia width 8, proximal, 16 week (mouse)15692948175871849Mouse
26884452Sklq17_mskull length QTL 17, 16 week (mouse)153020014657963396Mouse

Markers in Region
Sdc2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
MGSCv371532,964,069 - 32,964,154UniSTSGRCm37
Celera1533,695,083 - 33,695,168UniSTS
Cytogenetic Map15B3.1UniSTS
cM Map1512.4UniSTS
U00674  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381533,033,964 - 33,034,128UniSTSGRCm38
MGSCv371532,963,719 - 32,963,883UniSTSGRCm37
Celera1533,694,733 - 33,694,897UniSTS
Cytogenetic Map15B3.1UniSTS
Whitehead_YAC15 UniSTS
D15Mit204  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381532,994,484 - 32,994,622UniSTSGRCm38
MGSCv371532,924,239 - 32,924,377UniSTSGRCm37
Celera1533,655,953 - 33,656,091UniSTS
Cytogenetic Map15B3.1UniSTS
cM Map1518.9UniSTS
Whitehead Genetic1514.2UniSTS
Whitehead_YAC15 UniSTS
AA960457  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381533,034,354 - 33,034,570UniSTSGRCm38
MGSCv371532,964,109 - 32,964,325UniSTSGRCm37
Celera1533,695,123 - 33,695,339UniSTS
Cytogenetic Map15B3.1UniSTS
Whitehead/MRC_RH15298.47UniSTS
RH136961  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381533,034,549 - 33,034,728UniSTSGRCm38
MGSCv371532,964,304 - 32,964,483UniSTSGRCm37
Celera1533,695,318 - 33,695,497UniSTS
Cytogenetic Map15B3.1UniSTS
RH129475  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381533,033,269 - 33,033,482UniSTSGRCm38
MGSCv371532,963,024 - 32,963,237UniSTSGRCm37
Celera1533,694,038 - 33,694,251UniSTS
Cytogenetic Map15B3.1UniSTS
D15Mit7  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381533,016,480 - 33,016,589UniSTSGRCm38
MGSCv371532,946,235 - 32,946,344UniSTSGRCm37
Cytogenetic Map15B3.1UniSTS
cM Map1514.5UniSTS
Whitehead Genetic1514.2UniSTS
Whitehead/MRC_RH15298.68UniSTS
Sdc2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381533,034,314 - 33,034,399UniSTSGRCm38
MGSCv371532,964,069 - 32,964,154UniSTSGRCm37
Celera1533,695,083 - 33,695,168UniSTS
Cytogenetic Map15B3.1UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000022871   ⟹   ENSMUSP00000022871
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1532,920,869 - 33,035,081 (+)Ensembl
GRCm38.p6 Ensembl1532,920,723 - 33,034,935 (+)Ensembl
RefSeq Acc Id: NM_008304   ⟹   NP_032330
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391532,920,869 - 33,034,867 (+)NCBI
GRCm381532,920,723 - 33,034,721 (+)ENTREZGENE
MGSCv371532,850,478 - 32,964,476 (+)RGD
Celera1533,584,115 - 33,695,490 (+)RGD
cM Map15 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_032330 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA17781 (Get FASTA)   NCBI Sequence Viewer  
  AAH03929 (Get FASTA)   NCBI Sequence Viewer  
  AAH47144 (Get FASTA)   NCBI Sequence Viewer  
  BAB27354 (Get FASTA)   NCBI Sequence Viewer  
  EDL08864 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000022871
  ENSMUSP00000022871.6
GenBank Protein P43407 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_032330   ⟸   NM_008304
- Peptide Label: precursor
- UniProtKB: P43407 (UniProtKB/Swiss-Prot),   Q99L05 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000022871   ⟸   ENSMUST00000022871
Protein Domains
Neurexin/syndecan/glycophorin C

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P43407-F1-model_v2 AlphaFold P43407 1-202 view protein structure

Promoters
RGD ID:6826459
Promoter ID:MM_KWN:18205
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   BoneMarrow_2Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6
Transcripts:OTTMUST00000069337,   OTTMUST00000069338
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361532,850,349 - 32,850,849 (+)MPROMDB
RGD ID:8683540
Promoter ID:EPDNEW_M19800
Type:initiation region
Name:Sdc2_1
Description:Mus musculus syndecan 2 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M19801  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381532,920,817 - 32,920,877EPDNEW
RGD ID:8683542
Promoter ID:EPDNEW_M19801
Type:multiple initiation site
Name:Sdc2_2
Description:Mus musculus syndecan 2 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M19800  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381532,921,089 - 32,921,149EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1349165 AgrOrtholog
Ensembl Genes ENSMUSG00000022261 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000022871 ENTREZGENE
  ENSMUST00000022871.7 UniProtKB/Swiss-Prot
InterPro Neurexin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Syndecan UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Syndecan/Neurexin_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Syndecan_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:15529 UniProtKB/Swiss-Prot
MGD MGI:1349165 ENTREZGENE
NCBI Gene 15529 ENTREZGENE
PANTHER PTHR10915 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10915:SF6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Syndecan UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sdc2 PhenoGen
PROSITE SYNDECAN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART 4.1m UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt P43407 ENTREZGENE
  Q99L05 ENTREZGENE, UniProtKB/TrEMBL
  SDC2_MOUSE UniProtKB/Swiss-Prot