Sox7 (SRY-box transcription factor 7) - Rat Genome Database

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Gene: Sox7 (SRY-box transcription factor 7) Rattus norvegicus
Analyze
Symbol: Sox7
Name: SRY-box transcription factor 7
RGD ID: 1310038
Description: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in cell differentiation; endoderm formation; and regulation of DNA-templated transcription. Predicted to act upstream of or within positive regulation of DNA-templated transcription and regulation of transcription by RNA polymerase II. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human SOX7 (SRY-box transcription factor 7); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; amitrole.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC290317; SRY (sex determining region Y)-box 7; SRY box 7; SRY-box containing gene 7; transcription factor SOX-7
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81542,356,405 - 42,363,166 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1542,356,289 - 42,363,164 (+)EnsemblGRCr8
mRatBN7.21538,180,503 - 38,187,264 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1538,180,503 - 38,187,264 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1540,037,796 - 40,044,594 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01541,188,477 - 41,195,275 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01539,641,092 - 39,647,853 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01547,293,699 - 47,300,460 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1547,293,699 - 47,300,460 (+)Ensemblrn6Rnor6.0
Rnor_5.01551,053,093 - 51,059,854 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41543,207,965 - 43,214,726 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1537,862,141 - 37,868,902 (+)NCBICelera
RGSC_v3.11543,223,666 - 43,228,547 (+)NCBI
Cytogenetic Map15p12NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

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

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:10320775   PMID:15082719   PMID:15220343   PMID:18682240   PMID:18819930   PMID:19108950   PMID:19328208   PMID:19515696   PMID:21146513   PMID:25847511   PMID:30871773  


Genomics

Comparative Map Data
Sox7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81542,356,405 - 42,363,166 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1542,356,289 - 42,363,164 (+)EnsemblGRCr8
mRatBN7.21538,180,503 - 38,187,264 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1538,180,503 - 38,187,264 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1540,037,796 - 40,044,594 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01541,188,477 - 41,195,275 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01539,641,092 - 39,647,853 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01547,293,699 - 47,300,460 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1547,293,699 - 47,300,460 (+)Ensemblrn6Rnor6.0
Rnor_5.01551,053,093 - 51,059,854 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41543,207,965 - 43,214,726 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1537,862,141 - 37,868,902 (+)NCBICelera
RGSC_v3.11543,223,666 - 43,228,547 (+)NCBI
Cytogenetic Map15p12NCBI
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 (-)Ensemblhg38GRCh38
GRCh37810,581,278 - 10,588,021 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36810,618,688 - 10,625,432 (-)NCBIBuild 36Build 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
(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 EnsemblGRCm39
GRCm381463,943,706 - 63,950,732 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1463,943,673 - 63,950,732 (+)Ensemblmm10GRCm38
MGSCv371464,562,543 - 64,569,569 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361462,897,816 - 62,904,842 (+)NCBIMGSCv36mm8
Celera1461,720,720 - 61,727,748 (+)NCBICelera
Cytogenetic Map14D1NCBI
cM Map1433.34NCBI
Sox7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540352,253,482 - 52,259,884 (-)Ensembl
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2527,871,952 - 27,889,698 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02527,370,450 - 27,388,195 (+)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (-)EnsemblSpeTri2.0 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 (-)EnsemblsusScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475824,556,436 - 24,562,204 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Sox7
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11260,456,490 - 60,463,434 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Sox7
22 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:1015
Count of miRNA genes:327
Interacting mature miRNAs:436
Transcripts:ENSRNOT00000016503
Prediction methods:Microtar, Miranda, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15231575947315759Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15144836456Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15231575953331089Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)153185580392671517Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152852773273527732Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1525285835104695021Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)152233635152597086Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1525285835104695021Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151915576287086765Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15278592347785923Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)154046315285463152Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151492659471614418Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)152233635167336351Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1525285835104695021Rat

Markers in Region
RH131053  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21538,186,946 - 38,187,127 (+)MAPPERmRatBN7.2
Rnor_6.01547,300,143 - 47,300,323NCBIRnor6.0
Rnor_5.01551,059,537 - 51,059,717UniSTSRnor5.0
RGSC_v3.41543,214,409 - 43,214,589UniSTSRGSC3.4
Celera1537,868,585 - 37,868,765UniSTS
RH 3.4 Map15282.4UniSTS
Cytogenetic Map15p12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 152 91 90 59 34 59 6 295 134 11 131 78 92 31 9 9

Sequence


Ensembl Acc Id: ENSRNOT00000016503   ⟹   ENSRNOP00000016503
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1542,356,289 - 42,363,164 (+)Ensembl
mRatBN7.2 Ensembl1538,180,503 - 38,187,264 (+)Ensembl
Rnor_6.0 Ensembl1547,293,699 - 47,300,460 (+)Ensembl
RefSeq Acc Id: NM_001106045   ⟹   NP_001099515
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81542,356,405 - 42,363,166 (+)NCBI
mRatBN7.21538,180,503 - 38,187,264 (+)NCBI
Rnor_6.01547,293,699 - 47,300,460 (+)NCBI
Rnor_5.01551,053,093 - 51,059,854 (+)NCBI
RGSC_v3.41543,207,965 - 43,214,726 (+)RGD
Celera1537,862,141 - 37,868,902 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001099515 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL85328 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000016503
  ENSRNOP00000016503.4
RefSeq Acc Id: NP_001099515   ⟸   NM_001106045
- UniProtKB: D3ZTE1 (UniProtKB/TrEMBL),   A6K6G8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000016503   ⟸   ENSRNOT00000016503
Protein Domains
HMG box   Sox C-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZTE1-F1-model_v2 AlphaFold D3ZTE1 1-383 view protein structure

Transcriptome

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

Promoters
RGD ID:13699782
Promoter ID:EPDNEW_R10304
Type:single initiation site
Name:Sox7_1
Description:SRY box 7
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_6.01547,293,697 - 47,293,757EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310038 AgrOrtholog
BioCyc Gene G2FUF-13394 BioCyc
Ensembl Genes ENSRNOG00000012049 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016503 ENTREZGENE
  ENSRNOT00000016503.6 UniProtKB/TrEMBL
Gene3D-CATH 1.10.30.10 UniProtKB/TrEMBL
InterPro DUF3547 UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/TrEMBL
  HMG_superfamily UniProtKB/TrEMBL
  Sox7/17/18_central UniProtKB/TrEMBL
  SRY-related_HMG-box_TFs UniProtKB/TrEMBL
KEGG Report rno:290317 UniProtKB/TrEMBL
NCBI Gene 290317 ENTREZGENE
PANTHER SOX TRANSCRIPTION FACTOR UniProtKB/TrEMBL
  TRANSCRIPTION FACTOR SOX-7 UniProtKB/TrEMBL
Pfam HMG_box UniProtKB/TrEMBL
  Sox_C_TAD UniProtKB/TrEMBL
PhenoGen Sox7 PhenoGen
PROSITE HMG_BOX_2 UniProtKB/TrEMBL
  SOX_C UniProtKB/TrEMBL
RatGTEx ENSRNOG00000012049 RatGTEx
SMART HMG UniProtKB/TrEMBL
Superfamily-SCOP HMG-box UniProtKB/TrEMBL
UniProt A6K6G8 ENTREZGENE, UniProtKB/TrEMBL
  D3ZTE1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-08-07 Sox7  SRY-box transcription factor 7  Sox7  SRY box 7  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-11-12 Sox7  SRY box 7  Sox7  SRY (sex determining region Y)-box 7  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-18 Sox7  SRY (sex determining region Y)-box 7  Sox7  SRY-box containing gene 7   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Sox7  SRY-box containing gene 7   Sox7_predicted  SRY-box containing gene 7 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Sox7_predicted  SRY-box containing gene 7 (predicted)      Symbol and Name status set to approved 70820 APPROVED