Sox7 (SRY (sex determining region Y)-box 7) - Rat Genome Database

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Gene: Sox7 (SRY (sex determining region Y)-box 7) Mus musculus
Analyze
Symbol: Sox7
Name: SRY (sex determining region Y)-box 7
RGD ID: 1320708
MGI Page MGI
Description: Enables DNA-binding transcription factor activity, RNA polymerase II-specific and transcription cis-regulatory region binding activity. Acts upstream of or within positive regulation of DNA-templated transcription and regulation of transcription by RNA polymerase II. Located in cytoplasm and nucleus. Is expressed in several structures, including alimentary system; central nervous system; early conceptus; reproductive system; and urinary system. Used to study congenital diaphragmatic hernia. Orthologous to human SOX7 (SRY-box transcription factor 7).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: mSOX7; SRY-box containing gene 7; transcription factor SOX-7
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
GRCm391464,181,155 - 64,188,181 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1464,181,122 - 64,188,181 (+)EnsemblGRCm39 Ensembl
GRCm381463,943,706 - 63,950,732 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1463,943,673 - 63,950,732 (+)EnsemblGRCm38mm10GRCm38
MGSCv371464,562,543 - 64,569,569 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361462,897,816 - 62,904,842 (+)NCBIMGSCv36mm8
Celera1461,720,720 - 61,727,748 (+)NCBICelera
Cytogenetic Map14D1NCBI
cM Map1433.34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

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

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Mouse brain organization revealed through direct genome-scale TF expression analysis. Gray PA, etal., Science 2004 Dec 24;306(5705):2255-7.
2. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. 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.
5. Mouse MP Annotation Import Pipeline RGD automated import pipeline
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:1614875   PMID:8441686   PMID:8921394   PMID:10320775   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11691915   PMID:11973269   PMID:12477932   PMID:12815626   PMID:15082719  
PMID:15220343   PMID:15355796   PMID:15542856   PMID:16141072   PMID:16141073   PMID:16306355   PMID:16895970   PMID:17610846   PMID:18287559   PMID:19272523   PMID:19328208   PMID:19369396  
PMID:19489079   PMID:19515696   PMID:19801444   PMID:20059953   PMID:20412781   PMID:20573702   PMID:20932939   PMID:21146513   PMID:21267068   PMID:21873635   PMID:22492353   PMID:22711520  
PMID:22723016   PMID:22962592   PMID:22988430   PMID:23604320   PMID:23747191   PMID:23818617   PMID:24153254   PMID:24762086   PMID:24859004   PMID:24952961   PMID:25336743   PMID:25340657  
PMID:25912690   PMID:26475439   PMID:26630461   PMID:26864488   PMID:27173853   PMID:27241892   PMID:27411892   PMID:27528602   PMID:27802172   PMID:28087629   PMID:28334937   PMID:28467908  
PMID:28512199   PMID:28577909   PMID:28619820   PMID:28943254   PMID:29444818   PMID:29635272   PMID:29882512   PMID:30530745   PMID:30639059   PMID:30871468   PMID:31112136   PMID:31154937  
PMID:33095124   PMID:33846290   PMID:35831318   PMID:36046192   PMID:36715213   PMID:37000005   PMID:37551717   PMID:38374152  


Genomics

Comparative Map Data
Sox7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391464,181,155 - 64,188,181 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1464,181,122 - 64,188,181 (+)EnsemblGRCm39 Ensembl
GRCm381463,943,706 - 63,950,732 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1463,943,673 - 63,950,732 (+)EnsemblGRCm38mm10GRCm38
MGSCv371464,562,543 - 64,569,569 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361462,897,816 - 62,904,842 (+)NCBIMGSCv36mm8
Celera1461,720,720 - 61,727,748 (+)NCBICelera
Cytogenetic Map14D1NCBI
cM Map1433.34NCBI
SOX7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38810,723,768 - 10,730,511 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl810,723,768 - 10,730,511 (-)EnsemblGRCh38hg38GRCh38
GRCh37810,581,278 - 10,588,021 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36810,618,688 - 10,625,432 (-)NCBINCBI36Build 36hg18NCBI36
Build 34810,618,688 - 10,625,432NCBI
Celera89,709,191 - 9,716,191 (-)NCBICelera
Cytogenetic Map8p23.1NCBI
HuRef89,511,594 - 9,518,400 (-)NCBIHuRef
CHM1_1810,646,800 - 10,653,606 (-)NCBICHM1_1
T2T-CHM13v2.089,008,562 - 9,015,305 (+)NCBIT2T-CHM13v2.0
Sox7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81542,356,405 - 42,363,166 (+)NCBIGRCr8
mRatBN7.21538,180,503 - 38,187,264 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1538,180,503 - 38,187,264 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1540,037,796 - 40,044,594 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01541,188,477 - 41,195,275 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01539,641,092 - 39,647,853 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01547,293,699 - 47,300,460 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1547,293,699 - 47,300,460 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01551,053,093 - 51,059,854 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41543,207,965 - 43,214,726 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11543,223,666 - 43,228,547 (+)NCBI
Celera1537,862,141 - 37,868,902 (+)NCBICelera
Cytogenetic Map15p12NCBI
Sox7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540352,253,482 - 52,259,884 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540352,253,816 - 52,259,884 (-)NCBIChiLan1.0ChiLan1.0
SOX7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2727,180,826 - 27,187,703 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan183,213,289 - 3,220,167 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v088,476,357 - 8,483,144 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
SOX7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12527,216,111 - 27,222,142 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2527,215,528 - 27,220,227 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2527,871,952 - 27,889,698 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02527,370,450 - 27,388,195 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2527,370,562 - 27,377,493 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12527,324,552 - 27,342,303 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02527,218,744 - 27,236,487 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02527,372,604 - 27,390,369 (+)NCBIUU_Cfam_GSD_1.0
Sox7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049435,963,679 - 5,970,072 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366752,616,077 - 2,622,436 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366752,616,086 - 2,622,436 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SOX7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1413,938,388 - 13,945,166 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11413,938,381 - 13,945,324 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21415,286,380 - 15,293,330 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SOX7
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.188,368,632 - 8,375,529 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl88,368,912 - 8,375,530 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605234,052,909 - 34,059,785 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sox7
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475824,556,010 - 24,562,213 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475824,556,436 - 24,562,204 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Sox7
173 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:678
Count of miRNA genes:444
Interacting mature miRNAs:513
Transcripts:ENSMUST00000079652
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
1357589Kdnw2_mkidney weight 2 (mouse)Not determined1420887473121269804Mouse
1357527Epfpq1_mepididymal fat percentage QTL 1 (mouse)Not determined142106245071885801Mouse
27226774Tibl15_mtibia length 15, 10 week (mouse)143032195787937436Mouse
1300909Ath13_matherosclerosis 13 (mouse)Not determined143033525064335381Mouse
1300998Cia17_mcollagen induced arthritis 17 (mouse)Not determined143033525064335381Mouse
1300625Cosz2_mcocaine seizure 2 (mouse)Not determined143504579768785736Mouse
10043887Cia50_mcollagen induced arthritis QTL 50 (mouse)Not determined143743018571430320Mouse
4142419Tgq26_mtriglyceride QTL 26 (mouse)Not determined4033731974337319Mouse
1301777Bglq15_mbody growth late QTL 15 (mouse)Not determined144296241676962593Mouse
1301424Skull21_mskull morphology 21 (mouse)Not determined144296241676962593Mouse
1300805Mors3_mmodifier of obesity related sterility 3 (mouse)Not determined144303727077037418Mouse
1301091Bbaa21_mB.burgdorferi-associated arthritis 21 (mouse)Not determined144306584777066045Mouse
4141400Nilac8_mnicotine induced locomotor activity 8 (mouse)Not determined144306584777066045Mouse
1300605El5_mepilepsy 5 (mouse)Not determined144945542583455556Mouse
4142364Pbwg18_mpostnatal body weight growth 18 (mouse)Not determined145228198486282125Mouse
1301489Lbm10_mlean body mass 10 (mouse)Not determined145376129687761529Mouse
12880432Fgf23lq3_mFGF23 serum level QTL 3 (mouse)145393744087937440Mouse
10043889Cia52_mcollagen induced arthritis QTL 52 (mouse)Not determined145608238190082509Mouse
1301562Hwq1_mheart weight quantitative locus 1 (mouse)Not determined145654674590546941Mouse
1357565wrmod1_mwobbler modifier 1 (mouse)Not determined1458179640101859473Mouse
11039527Ccc2_mcolitis susceptibility in the Collaborative Cross 2 (mouse)145991861294138217Mouse
1300666Fembm2_mfemoral bone morphometry 2 (mouse)Not determined146239746096397680Mouse

Markers in Region
Sox7  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map14C3UniSTS
cM MapUN UniSTS
cM Map14 UniSTS
RH131053  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381463,950,421 - 63,950,599UniSTSGRCm38
MGSCv371464,569,258 - 64,569,436UniSTSGRCm37
Celera1461,727,437 - 61,727,615UniSTS
Cytogenetic Map14C3UniSTS
PMC60197P1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381463,948,029 - 63,948,887UniSTSGRCm38
MGSCv371464,566,866 - 64,567,724UniSTSGRCm37
Celera1461,725,045 - 61,725,903UniSTS
Cytogenetic Map14C3UniSTS
Sox7  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map14C3UniSTS
Sox7  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map14C3UniSTS
cM MapUN UniSTS
cM Map14 UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000079652   ⟹   ENSMUSP00000078597
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1464,181,122 - 64,188,181 (+)Ensembl
GRCm38.p6 Ensembl1463,943,673 - 63,950,732 (+)Ensembl
RefSeq Acc Id: NM_011446   ⟹   NP_035576
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391464,181,155 - 64,188,181 (+)NCBI
GRCm381463,943,706 - 63,950,732 (+)ENTREZGENE
MGSCv371464,562,543 - 64,569,569 (+)RGD
Celera1461,720,720 - 61,727,748 (+)RGD
cM Map14 ENTREZGENE
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_035576   ⟸   NM_011446
- UniProtKB: Q9R1T6 (UniProtKB/Swiss-Prot),   P40646 (UniProtKB/Swiss-Prot),   Q3U1W5 (UniProtKB/TrEMBL),   Q3U0W9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000078597   ⟸   ENSMUST00000079652
Protein Domains
HMG box   Sox C-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P40646-F1-model_v2 AlphaFold P40646 1-380 view protein structure

Promoters
RGD ID:8682716
Promoter ID:EPDNEW_M19388
Type:single initiation site
Name:Sox7_1
Description:Mus musculus SRY -box 7 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381463,943,678 - 63,943,738EPDNEW
RGD ID:6825454
Promoter ID:MM_KWN:17203
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   ES_Cell,   Kidney,   Liver,   Lung
Transcripts:ENSMUST00000079652
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361464,562,351 - 64,562,851 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:98369 AgrOrtholog
Ensembl Genes ENSMUSG00000063060 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000079652 ENTREZGENE
  ENSMUST00000079652.7 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.30.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro HMG_box_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sox7/17/18_central UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sox_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:20680 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:98369 ENTREZGENE
NCBI Gene 20680 ENTREZGENE
PANTHER SOX TRANSCRIPTION FACTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRANSCRIPTION FACTOR SOX-7 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam HMG_box UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sox17_18_mid UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sox7 PhenoGen
PROSITE HMG_BOX_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SOX_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART HMG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47095 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt P40646 ENTREZGENE
  Q3U0W9 ENTREZGENE, UniProtKB/TrEMBL
  Q3U1W5 ENTREZGENE, UniProtKB/TrEMBL
  Q9R1T6 ENTREZGENE
  SOX7_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary Q9R1T6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-11-26 Sox7  SRY (sex determining region Y)-box 7    SRY-box containing gene 7  Symbol and/or name change 5135510 APPROVED