SOX11 (SRY-box transcription factor 11) - Rat Genome Database

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Gene: SOX11 (SRY-box transcription factor 11) Sus scrofa
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Symbol: SOX11
Name: SRY-box transcription factor 11
RGD ID: 13947265
Description: ENCODES a protein that exhibits cis-regulatory region sequence-specific DNA binding (ortholog); DNA-binding transcription activator activity, RNA polymerase II-specific (ortholog); DNA-binding transcription factor activity (ortholog); INVOLVED IN closure of optic fissure (ortholog); cornea development in camera-type eye (ortholog); embryonic digestive tract morphogenesis (ortholog); ASSOCIATED WITH adenoid cystic carcinoma (ortholog); Coffin-Siris syndrome (ortholog); Coffin-Siris syndrome 9 (ortholog); FOUND IN nucleus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: SRY-box 11; transcription factor SOX-11
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3129,798,854 - 129,800,197 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.13129,797,438 - 129,800,568 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23138,751,621 - 138,754,531 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
anatomical structure morphogenesis  (IEA)
brain development  (IBA)
camera-type eye morphogenesis  (IBA)
closure of optic fissure  (IEA,ISS)
cornea development in camera-type eye  (IEA,ISS)
embryonic digestive tract morphogenesis  (IEA,ISS)
embryonic skeletal system morphogenesis  (IEA,ISS)
eyelid development in camera-type eye  (IEA,ISS)
glial cell development  (IEA)
glial cell proliferation  (IEA,ISS)
hard palate development  (IEA,ISS)
kidney development  (ISO)
lens morphogenesis in camera-type eye  (IEA,ISS)
lung morphogenesis  (IEA,ISS)
negative regulation of gene expression  (IEA,ISS)
negative regulation of glial cell proliferation  (IEA,ISS)
negative regulation of lymphocyte proliferation  (IEA)
negative regulation of transcription by RNA polymerase II  (IBA,IEA,ISS)
nervous system development  (IEA,ISS)
neuroepithelial cell differentiation  (IEA,ISS)
neuron differentiation  (IBA,IEA)
noradrenergic neuron differentiation  (IEA,ISS)
oligodendrocyte development  (ISO)
outflow tract morphogenesis  (IEA,ISS)
positive regulation of BMP signaling pathway  (IEA,ISS)
positive regulation of DNA-templated transcription  (IEA)
positive regulation of gene expression  (IEA,ISS)
positive regulation of hippo signaling  (IEA,ISS)
positive regulation of hormone secretion  (IEA,ISS)
positive regulation of lens epithelial cell proliferation  (IEA,ISS)
positive regulation of neurogenesis  (IEA,ISS)
positive regulation of neuron differentiation  (IEA,ISS)
positive regulation of ossification  (IEA,ISS)
positive regulation of osteoblast differentiation  (IEA,ISS)
positive regulation of stem cell proliferation  (IEA,ISS)
positive regulation of transcription by RNA polymerase II  (IBA,IEA,ISO)
regulation of transcription by RNA polymerase II  (IEA)
regulation of transforming growth factor beta receptor signaling pathway  (IEA)
skeletal muscle cell differentiation  (IEA,ISO)
soft palate development  (IEA,ISS)
spinal cord development  (IEA,ISS)
sympathetic nervous system development  (IEA,ISS)
ventricular septum morphogenesis  (IEA,ISS)

Cellular Component
nucleoplasm  (IEA)
nucleus  (IBA,IEA,ISS)
plasma membrane  (IEA)

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
SOX11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3129,798,854 - 129,800,197 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.13129,797,438 - 129,800,568 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23138,751,621 - 138,754,531 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SOX11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3825,692,384 - 5,701,385 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl25,692,384 - 5,701,385 (+)EnsemblGRCh38hg38GRCh38
GRCh3725,832,516 - 5,841,517 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3625,750,250 - 5,758,968 (+)NCBINCBI36Build 36hg18NCBI36
Build 3425,783,396 - 5,792,114NCBI
Celera25,748,512 - 5,756,851 (+)NCBICelera
Cytogenetic Map2p25.2NCBI
HuRef25,676,397 - 5,685,112 (+)NCBIHuRef
CHM1_125,762,093 - 5,770,810 (+)NCBICHM1_1
T2T-CHM13v2.025,713,811 - 5,722,812 (+)NCBIT2T-CHM13v2.0
Sox11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391227,384,267 - 27,392,717 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1227,384,263 - 27,392,573 (-)EnsemblGRCm39 Ensembl
GRCm381227,334,268 - 27,342,718 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1227,334,264 - 27,342,574 (-)EnsemblGRCm38mm10GRCm38
MGSCv371228,019,133 - 28,027,583 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361227,921,484 - 27,928,980 (-)NCBIMGSCv36mm8
Celera1228,811,290 - 28,819,758 (-)NCBICelera
Cytogenetic Map12A2NCBI
cM Map129.95NCBI
Sox11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8649,736,773 - 49,738,794 (-)NCBIGRCr8
mRatBN7.2644,008,333 - 44,010,354 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl644,008,340 - 44,010,354 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx644,315,859 - 44,317,880 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0644,630,739 - 44,632,760 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0644,063,910 - 44,065,931 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0646,629,967 - 46,631,988 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl646,629,974 - 46,631,983 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0655,343,067 - 55,345,088 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4645,141,366 - 45,143,387 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1645,144,498 - 45,146,513 (-)NCBI
Celera643,252,857 - 43,254,878 (-)NCBICelera
Cytogenetic Map6q16NCBI
Sox11
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554872,679,145 - 2,680,521 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554872,678,961 - 2,680,869 (-)NCBIChiLan1.0ChiLan1.0
SOX11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v212120,808,899 - 120,820,381 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A120,812,876 - 120,824,358 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A5,699,738 - 5,711,210 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A5,840,399 - 5,841,762 (+)NCBIpanpan1.1PanPan1.1panPan2
SOX11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha173,570,850 - 3,572,822 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0173,680,433 - 3,682,409 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl173,680,517 - 3,682,010 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1173,573,068 - 3,575,034 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0173,576,503 - 3,578,454 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0173,580,950 - 3,582,922 (+)NCBIUU_Cfam_GSD_1.0
Sox11
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244050589,632,081 - 9,635,331 (-)NCBIHiC_Itri_2
SpeTri2.0NW_004937107203,120 - 207,185 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SOX11
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.114101,982,551 - 101,991,305 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl14101,989,895 - 101,991,220 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604510,348,860 - 10,357,867 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sox11
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248464,044,893 - 4,046,248 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248464,043,010 - 4,046,660 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SOX11
49 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system
High
Medium
Low 2 1 18
Below cutoff 1 3 1 2 2

Sequence


RefSeq Acc Id: ENSSSCT00000009462   ⟹   ENSSSCP00000009219
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl3129,798,854 - 129,800,197 (-)Ensembl
RefSeq Acc Id: XM_003354937   ⟹   XP_003354985
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.13129,797,438 - 129,800,568 (-)NCBI
Sequence:
RefSeq Acc Id: XP_003354985   ⟸   XM_003354937
- UniProtKB: F1S9L1 (UniProtKB/TrEMBL),   A0A8D0S848 (UniProtKB/TrEMBL),   A0A8D0MYU5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000009219   ⟸   ENSSSCT00000009462
Protein Domains
HMG box


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000008649 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00015020437 UniProtKB/TrEMBL
  ENSSSCG00025043326 UniProtKB/TrEMBL
  ENSSSCG00030064540 UniProtKB/TrEMBL
  ENSSSCG00035005335 UniProtKB/TrEMBL
  ENSSSCG00040061481 UniProtKB/TrEMBL
  ENSSSCG00045002787 UniProtKB/TrEMBL
  ENSSSCG00050021927 UniProtKB/TrEMBL
  ENSSSCG00055030821 UniProtKB/TrEMBL
  ENSSSCG00060066094 UniProtKB/TrEMBL
  ENSSSCG00065067333 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000009462 ENTREZGENE
  ENSSSCT00000009462.5 UniProtKB/TrEMBL
  ENSSSCT00015026979.1 UniProtKB/TrEMBL
  ENSSSCT00025058704.1 UniProtKB/TrEMBL
  ENSSSCT00030090199.1 UniProtKB/TrEMBL
  ENSSSCT00035006692.1 UniProtKB/TrEMBL
  ENSSSCT00040083635.1 UniProtKB/TrEMBL
  ENSSSCT00045004359.1 UniProtKB/TrEMBL
  ENSSSCT00050029554.1 UniProtKB/TrEMBL
  ENSSSCT00055061522.1 UniProtKB/TrEMBL
  ENSSSCT00060090263.1 UniProtKB/TrEMBL
  ENSSSCT00065092411.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.30.10 UniProtKB/TrEMBL
InterPro HMG_box_dom UniProtKB/TrEMBL
  HMG_box_dom_sf UniProtKB/TrEMBL
  SOX-11/4 UniProtKB/TrEMBL
KEGG Report ssc:100514639 UniProtKB/TrEMBL
NCBI Gene SOX11 ENTREZGENE
PANTHER PTHR10270:SF113 UniProtKB/TrEMBL
  SOX TRANSCRIPTION FACTOR UniProtKB/TrEMBL
Pfam HMG_box UniProtKB/TrEMBL
PIRSF SOX-12/11/4a UniProtKB/TrEMBL
PROSITE HMG_BOX_2 UniProtKB/TrEMBL
SMART HMG UniProtKB/TrEMBL
Superfamily-SCOP SSF47095 UniProtKB/TrEMBL
UniProt A0A8D0MYU5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0S848 ENTREZGENE, UniProtKB/TrEMBL
  F1S9L1 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:93351 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-06-18 SOX11  SRY-box transcription factor 11  SOX11  SRY-box 11  Symbol and/or name change 5135510 APPROVED