Sh2d4a (SH2 domain containing 4A) - Rat Genome Database
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Gene: Sh2d4a (SH2 domain containing 4A) Mus musculus
Analyze
Symbol: Sh2d4a
Name: SH2 domain containing 4A
RGD ID: 1317503
MGI Page MGI
Description: Predicted to have phosphatase binding activity. Predicted to be involved in negative regulation of phosphatase activity. Localizes to cytoplasm. Is expressed in medulla oblongata floor plate; metencephalon floor plate; and spinal cord floor plate. Orthologous to human SH2D4A (SH2 domain containing 4A); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; benzo[a]pyrene; Benzo[k]fluoranthene.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 2210402M20Rik; SH; SH2 domain-containing protein 4A; SH2A
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39868,729,180 - 68,800,356 (+)NCBIGRCm39mm39
GRCm38868,276,528 - 68,347,704 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl868,276,567 - 68,347,699 (+)EnsemblGRCm38mm10GRCm38
MGSCv37870,800,427 - 70,871,603 (+)NCBIGRCm37mm9NCBIm37
MGSCv36871,205,517 - 71,277,048 (+)NCBImm8
Celera870,819,013 - 70,892,695 (+)NCBICelera
Cytogenetic Map8B3.3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
COVID-19  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IBA,IDA)
cytosol  (ISO)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

Additional References at PubMed
PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:12477932   PMID:16141072   PMID:16141073   PMID:17251388   PMID:18641339   PMID:21267068   PMID:21677750   PMID:21873635  


Genomics

Comparative Map Data
Sh2d4a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39868,729,180 - 68,800,356 (+)NCBIGRCm39mm39
GRCm38868,276,528 - 68,347,704 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl868,276,567 - 68,347,699 (+)EnsemblGRCm38mm10GRCm38
MGSCv37870,800,427 - 70,871,603 (+)NCBIGRCm37mm9NCBIm37
MGSCv36871,205,517 - 71,277,048 (+)NCBImm8
Celera870,819,013 - 70,892,695 (+)NCBICelera
Cytogenetic Map8B3.3NCBI
SH2D4A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl819,313,693 - 19,396,218 (+)EnsemblGRCh38hg38GRCh38
GRCh38819,313,693 - 19,396,218 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37819,171,081 - 19,253,729 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36819,215,483 - 19,297,596 (+)NCBINCBI36hg18NCBI36
Build 34819,215,486 - 19,297,594NCBI
Celera818,134,620 - 18,217,068 (+)NCBI
Cytogenetic Map8p21.3NCBI
HuRef817,711,708 - 17,794,051 (+)NCBIHuRef
CHM1_1819,372,569 - 19,455,187 (+)NCBICHM1_1
Sh2d4a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01623,084,247 - 23,156,825 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1623,083,954 - 23,156,962 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01622,972,707 - 23,044,750 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41622,957,569 - 23,027,864 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11622,957,570 - 23,027,862 (-)NCBI
Celera1621,499,092 - 21,568,252 (-)NCBICelera
Cytogenetic Map16p14NCBI
Sh2d4a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540343,111,804 - 43,170,397 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540343,111,804 - 43,170,344 (+)NCBIChiLan1.0ChiLan1.0
SH2D4A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1815,486,658 - 15,568,497 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl815,486,659 - 15,568,497 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0818,536,774 - 18,619,073 (+)NCBIMhudiblu_PPA_v0panPan3
SH2D4A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1622,143,602 - 22,209,341 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11622,138,555 - 22,209,326 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Sh2d4a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365553,572,723 - 3,634,484 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC100518097
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11712,506,451 - 12,588,526 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21710,284,074 - 10,325,874 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SH2D4A
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1817,401,254 - 17,484,141 (+)NCBI
ChlSab1.1 Ensembl817,406,951 - 17,484,839 (+)Ensembl
Sh2d4a
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475815,132,580 - 15,195,063 (+)NCBI


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1558870Eae36_mexperimental allergic encephalomyelitis susceptibility 36 (mouse)Not determined81472316071045600Mouse
1357811Orq3_movulation rate QTL 3 (mouse)Not determined83201654471287993Mouse
4141437W10q14_mweight 10 weeks QTL 14 (mouse)Not determined3201654471287993Mouse
4141172W6q9_mweight 6 weeks QTL 9 (mouse)Not determined3201654471287993Mouse
4140966Egq12_mearly growth QTL 12 (mouse)Not determined3201654471287993Mouse
4140967Bmd39_mbone mineral density 39 (mouse)Not determined832016544117238700Mouse
1558875Eae31_mexperimental allergic encephalomyelitis susceptibility 31 (mouse)Not determined834642776114837007Mouse
1301013Capsq4_mcapsaicin sensitivity related QTL 4 (mouse)Not determined83616300092728652Mouse
27226754Femd6_mfemur midshaft diameter 6, 10 week (mouse)837400000109600000Mouse
12904744Carcdq1_mcardiac collagen deposition QTL 1 (mouse)83970925694689598Mouse
1301544Iba3_minduction of brown adipocytes 3 (mouse)Not determined84429488078295025Mouse
1301717Adip4_madiposity 4 (mouse)Not determined84763703081637146Mouse
10766453Char11_mP. chabaudi malaria resistance QTL 11 (mouse)84763703081637146Mouse
1301441Skull11_mskull morphology 11 (mouse)Not determined84773713481737254Mouse
1357715Alaa3_malopecia areata 3 (mouse)Not determined84879293982793021Mouse
14746987Manh64_mmandible shape 64 (mouse)85005330684053306Mouse
14747005Mancz7_mmandible centroid size 7 (mouse)85005330684053306Mouse
14700686Civq3_mcerebral infarct volume QTL 3 (mouse)85188219185882191Mouse
1301506Aevm1_mautoimmune extremity vasculitis in MRL mice 1 (mouse)Not determined85428781788287993Mouse
1301952Im3_mimmunoregulatory 3 (mouse)Not determined85470661488706763Mouse
10412287Carg3_mCandida albicans resistance gene 3 (mouse)Not determined85554502889545028Mouse
11353828Gf7_mgonadal fat pad weight 7 (mouse)85820147992201479Mouse
10043975Obq31_mobesity QTL 31 (mouse)Not determined85840977692409776Mouse
1301688Orch6_mautoimmune orchitis resistance 6 (mouse)Not determined86078685094786976Mouse
4141285Tgq18_mtriglyceride QTL 18 (mouse)Not determined6346010797460107Mouse
4141797Skmw16_mskeletal muscle weight 16 (mouse)Not determined86393954797939696Mouse
1357787Vtbt5_mvertebral trabecular bone trait 5 (mouse)Not determined86535776899357920Mouse
10043992Hbnr11_mHeligmosomoides bakeri nematode resistance 11 (mouse)Not determined86560020799600347Mouse
10766466Char12_mP. chabaudi malaria resistance QTL 12 (mouse)86826982782600347Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:346
Count of miRNA genes:249
Interacting mature miRNAs:289
Transcripts:ENSMUST00000066594
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


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000066594   ⟹   ENSMUSP00000070825
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl868,276,567 - 68,347,694 (+)Ensembl
RefSeq Acc Id: ENSMUST00000212166   ⟹   ENSMUSP00000148702
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl868,282,307 - 68,347,699 (+)Ensembl
RefSeq Acc Id: NM_028182   ⟹   NP_082458
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39868,729,180 - 68,800,356 (+)NCBI
GRCm38868,276,528 - 68,347,704 (+)ENTREZGENE
MGSCv37870,800,427 - 70,871,603 (+)RGD
Celera870,819,013 - 70,892,695 (+)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006509751   ⟹   XP_006509814
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39868,729,532 - 68,800,356 (+)NCBI
GRCm38868,276,886 - 68,347,704 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_082458 (Get FASTA)   NCBI Sequence Viewer  
  XP_006509814 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI16683 (Get FASTA)   NCBI Sequence Viewer  
  BAB25905 (Get FASTA)   NCBI Sequence Viewer  
  CAE11720 (Get FASTA)   NCBI Sequence Viewer  
  Q9D7V1 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_082458   ⟸   NM_028182
- UniProtKB: Q9D7V1 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006509814   ⟸   XM_006509751
- Peptide Label: isoform X1
- UniProtKB: Q9D7V1 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000070825   ⟸   ENSMUST00000066594
RefSeq Acc Id: ENSMUSP00000148702   ⟸   ENSMUST00000212166
Protein Domains
SH2

Promoters
RGD ID:8667205
Promoter ID:EPDNEW_M11633
Type:initiation region
Name:Sh2d4a_2
Description:Mus musculus SH2 domain containing 4A , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M11634  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38868,276,575 - 68,276,635EPDNEW
RGD ID:8667207
Promoter ID:EPDNEW_M11634
Type:multiple initiation site
Name:Sh2d4a_1
Description:Mus musculus SH2 domain containing 4A , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M11633  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38868,276,731 - 68,276,791EPDNEW
RGD ID:6843709
Promoter ID:MM_KWN:54584
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Kidney,   Liver,   Lung
Transcripts:NM_028182
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36870,800,356 - 70,800,856 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1919531 AgrOrtholog
Ensembl Genes ENSMUSG00000053886 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000070825 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000148702 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000066594 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000212166 UniProtKB/TrEMBL
Gene3D-CATH 3.30.505.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH2_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:72281 UniProtKB/Swiss-Prot
MGD MGI:1919531 ENTREZGENE
NCBI Gene 72281 ENTREZGENE
Pfam SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sh2d4a PhenoGen
PRINTS SH2DOMAIN UniProtKB/Swiss-Prot
PROSITE SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF55550 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Mm.40974 ENTREZGENE
UniProt A0A1D5RMA9_MOUSE UniProtKB/TrEMBL
  Q9D7V1 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q14AV2 UniProtKB/Swiss-Prot