Sox30 (SRY (sex determining region Y)-box 30) - Rat Genome Database

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Gene: Sox30 (SRY (sex determining region Y)-box 30) Mus musculus
Analyze
Symbol: Sox30
Name: SRY (sex determining region Y)-box 30
RGD ID: 1313914
MGI Page MGI
Description: Enables DNA-binding transcription activator activity, RNA polymerase II-specific and DNA-binding transcription repressor activity, RNA polymerase II-specific. Involved in negative regulation of transcription by RNA polymerase II; positive regulation of transcription by RNA polymerase II; and proacrosomal vesicle fusion. Located in chromocenter and nucleus. Is expressed in several structures, including genitourinary system; gut; heart; liver; and lung. Human ortholog(s) of this gene implicated in hepatocellular carcinoma and lung cancer. Orthologous to human SOX30 (SRY-box transcription factor 30).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: SRY-box containing gene 30; transcription factor SOX-30
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391145,869,873 - 45,908,824 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1145,871,137 - 45,908,821 (+)EnsemblGRCm39 Ensembl
GRCm381145,979,069 - 46,017,992 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1145,980,310 - 46,017,994 (+)EnsemblGRCm38mm10GRCm38
MGSCv371145,793,812 - 45,831,494 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361145,823,733 - 45,861,417 (+)NCBIMGSCv36mm8
Celera1150,569,188 - 50,580,989 (+)NCBICelera
Cytogenetic Map11B1.1NCBI
cM Map1127.49NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. SOX30 Inhibits Tumor Metastasis through Attenuating Wnt-Signaling via Transcriptional and Posttranslational Regulation of β-Catenin in Lung Cancer. Han F, etal., EBioMedicine. 2018 May;31:253-266. doi: 10.1016/j.ebiom.2018.04.026. Epub 2018 May 5.
2. SOX30, a novel epigenetic silenced tumor suppressor, promotes tumor cell apoptosis by transcriptional activating p53 in lung cancer. Han F, etal., Oncogene. 2015 Aug 13;34(33):4391-402. doi: 10.1038/onc.2014.370. Epub 2014 Dec 1.
3. High expression of SOX30 is associated with favorable survival in human lung adenocarcinoma. Han F, etal., Sci Rep. 2015 Sep 2;5:13630. doi: 10.1038/srep13630.
4. High expression of SRY-box transcription factor 30 associates with well differentiation, absent lymph node metastasis and predicts longer survival in nonsmall-cell lung cancer patients. Liu C, etal., Medicine (Baltimore). 2020 May;99(20):e20122. doi: 10.1097/MD.0000000000020122.
5. MGDs mouse GO annotations MGD data from the GO Consortium
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. MicroRNA-645 represses hepatocellular carcinoma progression by inhibiting SOX30-mediated p53 transcriptional activation. Tao J, etal., Int J Biol Macromol. 2019 Jan;121:214-222. doi: 10.1016/j.ijbiomac.2018.10.032. Epub 2018 Oct 9.
Additional References at PubMed
PMID:10359848   PMID:12438750   PMID:12466851   PMID:12815626   PMID:14681479   PMID:15618518   PMID:16564520   PMID:18287559   PMID:21267068   PMID:21677750   PMID:21779340   PMID:21873635  
PMID:24194600   PMID:24810894   PMID:24952961   PMID:27626380   PMID:29247201   PMID:29848638   PMID:29866902   PMID:30061742   PMID:30871468   PMID:31835093   PMID:33721419   PMID:34059773  


Genomics

Comparative Map Data
Sox30
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391145,869,873 - 45,908,824 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1145,871,137 - 45,908,821 (+)EnsemblGRCm39 Ensembl
GRCm381145,979,069 - 46,017,992 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1145,980,310 - 46,017,994 (+)EnsemblGRCm38mm10GRCm38
MGSCv371145,793,812 - 45,831,494 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361145,823,733 - 45,861,417 (+)NCBIMGSCv36mm8
Celera1150,569,188 - 50,580,989 (+)NCBICelera
Cytogenetic Map11B1.1NCBI
cM Map1127.49NCBI
SOX30
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385157,625,679 - 157,671,480 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5157,625,679 - 157,671,480 (-)EnsemblGRCh38hg38GRCh38
GRCh375157,052,687 - 157,098,488 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365156,985,265 - 157,012,006 (-)NCBINCBI36Build 36hg18NCBI36
Celera5153,079,301 - 153,106,027 (-)NCBICelera
Cytogenetic Map5q33.3NCBI
HuRef5152,141,308 - 152,168,043 (-)NCBIHuRef
CHM1_15156,485,413 - 156,512,148 (-)NCBICHM1_1
T2T-CHM13v2.05158,144,714 - 158,190,505 (-)NCBIT2T-CHM13v2.0
Sox30
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81030,918,707 - 30,948,415 (+)NCBIGRCr8
mRatBN7.21030,417,499 - 30,446,441 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1030,418,473 - 30,446,453 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01031,074,251 - 31,102,211 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1031,074,251 - 31,102,169 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01030,895,749 - 30,923,086 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41031,116,928 - 31,144,665 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1029,871,335 - 29,900,535 (+)NCBICelera
Cytogenetic Map10q21NCBI
Sox30
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540811,790,079 - 11,828,962 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540811,790,145 - 11,830,426 (-)NCBIChiLan1.0ChiLan1.0
SOX30
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24152,814,686 - 152,862,324 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15150,954,233 - 151,001,871 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05153,022,109 - 153,067,734 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15159,642,895 - 159,688,473 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5159,640,126 - 159,737,776 (-)Ensemblpanpan1.1panPan2
SOX30
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1452,587,163 - 52,615,945 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl452,587,355 - 52,615,945 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha452,478,213 - 52,507,510 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0453,021,730 - 53,051,044 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl453,022,045 - 53,051,044 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1452,849,219 - 52,878,517 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0452,955,552 - 52,984,862 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0453,473,267 - 53,502,568 (+)NCBIUU_Cfam_GSD_1.0
Sox30
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213107,051,963 - 107,087,980 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365155,458,393 - 5,537,946 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365155,501,315 - 5,537,946 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SOX30
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1665,642,223 - 65,678,047 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11665,642,107 - 65,677,693 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21671,494,089 - 71,532,303 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SOX30
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12360,013,384 - 60,038,682 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2360,014,046 - 60,037,997 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603417,546,899 - 17,616,449 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sox30
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473331,774,616 - 31,807,516 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473331,774,341 - 31,855,539 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Sox30
1017 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:176
Count of miRNA genes:146
Interacting mature miRNAs:159
Transcripts:ENSMUST00000049038
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
27226798Scvln18_msacral vertebrae length 2, 16 week (mouse)11325000060690826Mouse
26884446Sklq10_mskull length QTL 10, 10 week (mouse)11325000062890826Mouse
26884453Sklq16_mskull length QTL 16, 16 week (mouse)11325000072690826Mouse
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
27226741Metcl5_mmetatarsal-calcaneal length 5, 5 week (mouse)11465000046290827Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11688027789019734Mouse
27226738Metcl11_mmetatarsal-calcaneal length 11, 10 week (mouse)11885000061390826Mouse
26884401Huml4_mhumerus length 4, 10 week (mouse)111155000068490826Mouse
27226762Feml21_mfemur length 21, 16 week (mouse)111175000065990826Mouse
1357640Orq2_movulation rate QTL 2 (mouse)Not determined111226863768500330Mouse
4141127W3q4_mweight 3 weeks QTL 4 (mouse)Not determined1226863768500330Mouse
4141470Egq4_mearly growth QTL 4 (mouse)Not determined1226863768500330Mouse
4142109W10q2_mweight 10 weeks QTL 2 (mouse)Not determined1226863768500330Mouse
4141582Lgaq1_mlate growth adjusted QTL 1 (mouse)Not determined1226863768500330Mouse
4142308W6q3_mweight 6 weeks QTL 3 (mouse)Not determined111226863768500330Mouse
4142216Lgq1_mlate growth QTL 1 (mouse)Not determined1226863768500330Mouse
4141966Tailq1_mtail length QTL 1 (mouse)Not determined1226863768500330Mouse
1357851Scfq3_msubcutaneous fat pad weight QTL 3 (mouse)Not determined111226863768500330Mouse
1357720Kidpq1_mkidney weight percentage QTL 1 (mouse)Not determined111226863768500330Mouse
1357437Epfq4_mepididymal fat pad weight QTL 4 (mouse)Not determined111226863768500330Mouse
1559002Lmrq4_mLeishmania major resistance QTL 4 (mouse)Not determined111226863769684947Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
1558945Orgwq8_morgan weight QTL 8 (mouse)Not determined111705617567078411Mouse
10053687Eae6_msusceptibility to experimental allergic encephalomyelitis 6 (mouse)Not determined111778196668500330Mouse
12801459Leuf1_mleukocyte filtration 1 (mouse)111857861652578716Mouse
12801460Intim2_mintima modifier 2 (mouse)111857861652578716Mouse
12801457Intmrm2_mintima/media ratio modifier 2 (mouse)111857861652578716Mouse
1300938Bulb3_mbulb size 3 (mouse)Not determined111857861652578716Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1912420496897826Mouse
1300579Thypr1_mthymocyte proliferative response 1 (mouse)Not determined111928257753282715Mouse
14746971Manh70_mmandible shape 70 (mouse)111990589053905890Mouse
4141398Tgq22_mtriglyceride QTL 22 (mouse)Not determined2116340655163406Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112180736495881231Mouse
10044006Hbnr13_mHeligmosomoides bakeri nematode resistance 13 (mouse)Not determined112577262659772741Mouse
12910801Pwbwq14_mpost-weaning body weight QTL 14 (mouse)112719805750636094Mouse
12910804Pwbwq16_mpost-weaning body weight QTL 16 (mouse)112719805750636094Mouse
12910806Pwbwq15_mpost-weaning body weight QTL 15 (mouse)112719805750636094Mouse
12910817Pwgrq20_mpost-weaning growth rate QTL 20 (mouse)112719805750636094Mouse
12910818Ogrq5_moverall growth rate QTL 5 (mouse)112719805750636094Mouse
1357844Si5lq5_mserum IGFBP-5 level QTL 5 (mouse)Not determined112816587362165976Mouse
13524848Ppiq7_mprepulse inhibition QTL 7 (mouse)112856914762569147Mouse
1301426Desp2_mdespair 2 (mouse)Not determined112870858162708700Mouse
11522752Cocia18_mcocaine-induced activity, QTL 18 (mouse)113100820965008209Mouse
11059563Lmr31_mleishmaniasis resistance 31 (mouse)113210057766100694Mouse
1357782Char8_mP. chabaudi malaria resistance QTL 8 (mouse)Not determined113557861669684987Mouse
13208569Bmiq10_mbody mass index QTL 10 (mouse)113589082784890826Mouse
1301328Mol4_mmodifier of LPS-response 4 (mouse)Not determined113628257783481356Mouse
1301788Lbw8_mlupus NZB x NZW 8 (mouse)Not determined113650328770509492Mouse
1301896Tria1_mT-cell receptor induced activation 1 (mouse)Not determined113661356570613855Mouse
4141853Skmw17_mskeletal muscle weight 17 (mouse)Not determined113708094171081064Mouse
4142475Ity2a_mimmunity to S. typhimurium 2a (mouse)Not determined113776858060402716Mouse
10766457Nwa3_mNew Zealand White autoimmunity 3 (mouse)113801611572016209Mouse
10053675Eae44b_mexperimental allergic encephalomyelitis susceptibility 44b (mouse)Not determined113995072854094448Mouse
11532698Sluc36a_msusceptibility to lung cancer 36a (mouse)114225661776256730Mouse
11532699Sluc36b_msusceptibility to lung cancer 36b (mouse)114225661776256730Mouse
1300713Vmbic10_mventral midbrain iron content 10 (mouse)Not determined114277262654081064Mouse
4142300Ctrq3_mC. trachomatis resistance QTL 3 (mouse)Not determined114463003876854757Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44630038113058009Mouse
1302021Nidd1n_mnon-insulin-dependent diabetes mellitus 1 in NSY (mouse)Not determined114516587379978324Mouse
1357878Mastr_mmodifier of astrocytoma (mouse)Not determined114570858189818733Mouse

Markers in Region
Sox30  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381145,983,387 - 45,983,484UniSTSGRCm38
MGSCv371145,796,889 - 45,796,986UniSTSGRCm37
Celera1150,572,264 - 50,572,361UniSTS
Cytogenetic Map11B1.1UniSTS
cM Map1121.0UniSTS
Sox30  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map11B1.1UniSTS
cM Map1121.0UniSTS
Sox30  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map11B1.1UniSTS


Expression


Sequence


RefSeq Acc Id: ENSMUST00000049038   ⟹   ENSMUSP00000037519
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1145,871,137 - 45,908,821 (+)Ensembl
GRCm38.p6 Ensembl1145,980,310 - 46,017,994 (+)Ensembl
RefSeq Acc Id: NM_173384   ⟹   NP_775560
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391145,871,095 - 45,908,824 (+)NCBI
GRCm381145,980,310 - 46,017,992 (+)NCBI
MGSCv371145,793,812 - 45,831,494 (+)RGD
Celera1150,569,188 - 50,580,989 (+)ENTREZGENE
cM Map11 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006532797   ⟹   XP_006532860
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391145,869,873 - 45,907,920 (+)NCBI
GRCm381145,979,069 - 46,017,093 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_775560 (Get FASTA)   NCBI Sequence Viewer  
  XP_006532860 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF99391 (Get FASTA)   NCBI Sequence Viewer  
  EDL33828 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000037519
  ENSMUSP00000037519.4
GenBank Protein Q8CGW4 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_775560   ⟸   NM_173384
- UniProtKB: Q8CGW4 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006532860   ⟸   XM_006532797
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSMUSP00000037519   ⟸   ENSMUST00000049038

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8CGW4-F1-model_v2 AlphaFold Q8CGW4 1-782 view protein structure

Promoters
RGD ID:6822189
Promoter ID:MM_KWN:7081
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_2Hour,   BoneMarrow_4Hour
Transcripts:ENSMUST00000049038,   ENSMUST00000109253,   UC007INX.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361145,793,871 - 45,794,371 (+)MPROMDB
RGD ID:8674388
Promoter ID:EPDNEW_M15225
Type:initiation region
Name:Sox30_1
Description:Mus musculus SRY -box 30 , 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
GRCm381145,980,332 - 45,980,392EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1341157 AgrOrtholog
Ensembl Genes ENSMUSG00000040489 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000049038 ENTREZGENE
  ENSMUST00000049038.4 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.30.10 UniProtKB/Swiss-Prot
InterPro HMG_box_dom UniProtKB/Swiss-Prot
  HMG_box_dom_sf UniProtKB/Swiss-Prot
KEGG Report mmu:214105 UniProtKB/Swiss-Prot
MGD MGI:1341157 ENTREZGENE
NCBI Gene 214105 ENTREZGENE
PANTHER TRANSCRIPTION FACTOR SOX-30 UniProtKB/Swiss-Prot
  TRANSCRIPTION FACTOR SOX-30 UniProtKB/Swiss-Prot
Pfam HMG_box UniProtKB/Swiss-Prot
PhenoGen Sox30 PhenoGen
PROSITE HMG_BOX_2 UniProtKB/Swiss-Prot
SMART HMG UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47095 UniProtKB/Swiss-Prot
UniProt Q8CGW4 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-11-26 Sox30  SRY (sex determining region Y)-box 30    SRY-box containing gene 30  Symbol and/or name change 5135510 APPROVED