SDC4 (syndecan 4) - Rat Genome Database

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Gene: SDC4 (syndecan 4) Pan paniscus
Analyze
Symbol: SDC4
Name: syndecan 4
RGD ID: 11690605
Description: ENCODES a protein that exhibits fibronectin binding (ortholog); identical protein binding (ortholog); protein kinase C binding (ortholog); INVOLVED IN inner ear receptor cell stereocilium organization (ortholog); negative regulation of T cell proliferation (ortholog); neural tube closure (ortholog); PARTICIPATES IN syndecan signaling pathway; ASSOCIATED WITH bacterial infectious disease (ortholog); COVID-19 (ortholog); lung non-small cell carcinoma (ortholog); FOUND IN cell surface (ortholog); costamere (ortholog); focal adhesion (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: syndecan-4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly
Position:
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12042,746,597 - 42,769,736 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2042,746,281 - 42,769,737 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02041,656,406 - 41,679,549 (-)NCBIMhudiblu_PPA_v0panPan3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Genomics

Comparative Map Data
SDC4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12042,746,597 - 42,769,736 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2042,746,281 - 42,769,737 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02041,656,406 - 41,679,549 (-)NCBIMhudiblu_PPA_v0panPan3
SDC4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2045,325,288 - 45,348,424 (-)EnsemblGRCh38hg38GRCh38
GRCh382045,325,288 - 45,348,424 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372043,953,928 - 43,977,064 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362043,387,342 - 43,410,478 (-)NCBINCBI36hg18NCBI36
Build 342043,387,343 - 43,410,478NCBI
Celera2040,662,456 - 40,685,588 (-)NCBI
Cytogenetic Map20q13.12NCBI
HuRef2040,695,444 - 40,718,573 (-)NCBIHuRef
CHM1_12043,856,488 - 43,879,617 (-)NCBICHM1_1
Sdc4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392164,266,167 - 164,285,512 (-)NCBIGRCm39mm39
GRCm39 Ensembl2164,266,167 - 164,285,807 (-)Ensembl
GRCm382164,424,247 - 164,443,188 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2164,424,247 - 164,443,887 (-)EnsemblGRCm38mm10GRCm38
MGSCv372164,249,747 - 164,268,688 (-)NCBIGRCm37mm9NCBIm37
MGSCv362164,115,452 - 164,134,393 (-)NCBImm8
Celera2170,361,365 - 170,380,306 (-)NCBICelera
Cytogenetic Map2H3NCBI
cM Map285.16NCBI
Sdc4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23153,154,888 - 153,173,576 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl3153,154,896 - 153,173,580 (-)Ensembl
Rnor_6.03160,872,503 - 160,891,190 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3160,872,503 - 160,891,190 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03167,052,789 - 167,071,476 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43155,446,138 - 155,464,825 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13155,352,182 - 155,370,861 (-)NCBI
Celera3151,766,226 - 151,784,912 (-)NCBICelera
Cytogenetic Map3q42NCBI
Sdc4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544511,990,792 - 12,011,553 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544511,990,916 - 12,009,178 (+)NCBIChiLan1.0ChiLan1.0
SDC4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12432,628,704 - 32,648,809 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2432,630,437 - 32,649,114 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2432,273,638 - 32,293,743 (-)NCBI
ROS_Cfam_1.02433,339,093 - 33,359,207 (-)NCBI
UMICH_Zoey_3.12432,600,350 - 32,620,457 (-)NCBI
UNSW_CanFamBas_1.02432,715,919 - 32,736,026 (-)NCBI
UU_Cfam_GSD_1.02433,259,679 - 33,280,258 (-)NCBI
Sdc4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640192,074,895 - 192,108,750 (+)NCBI
SpeTri2.0NW_0049365147,528,538 - 7,562,391 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SDC4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11747,650,387 - 47,670,499 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21753,254,792 - 53,270,726 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SDC4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1218,490,474 - 18,513,329 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl218,490,485 - 18,513,332 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605067,132,278 - 67,155,156 (+)NCBIVero_WHO_p1.0
Sdc4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247909,146,371 - 9,166,729 (+)NCBIHetGla_female_1.0hetGla2


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_003825958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide SSBP01000203 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSPPAT00000029910   ⟹   ENSPPAP00000007503
RefSeq Status:
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl2042,746,281 - 42,769,737 (-)Ensembl
RefSeq Acc Id: ENSPPAT00000029918   ⟹   ENSPPAP00000007505
RefSeq Status:
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl2042,748,575 - 42,759,978 (-)Ensembl
RefSeq Acc Id: ENSPPAT00000029919   ⟹   ENSPPAP00000007506
RefSeq Status:
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl2042,748,575 - 42,757,750 (-)Ensembl
RefSeq Acc Id: XM_003825958   ⟹   XP_003826006
RefSeq Status:
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.12042,746,597 - 42,769,736 (-)NCBI
Mhudiblu_PPA_v02041,656,406 - 41,679,549 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003826006 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_003826006   ⟸   XM_003825958
- Sequence:
RefSeq Acc Id: ENSPPAP00000007503   ⟸   ENSPPAT00000029910
RefSeq Acc Id: ENSPPAP00000007505   ⟸   ENSPPAT00000029918
RefSeq Acc Id: ENSPPAP00000007506   ⟸   ENSPPAT00000029919


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000026773 Ensembl, ENTREZGENE
Ensembl Protein ENSPPAP00000007503 ENTREZGENE
NCBI Gene SDC4 ENTREZGENE