Sebox (SEBOX homeobox) - Rat Genome Database

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Gene: Sebox (SEBOX homeobox) Mus musculus
Analyze
Symbol: Sebox
Name: SEBOX homeobox
RGD ID: 62369
MGI Page MGI
Description: Predicted to enable DNA binding activity. Acts upstream of or within embryo development and oogenesis. Predicted to be located in nucleus. Is expressed in several structures, including central nervous system; craniocervical region bone; early conceptus; gonad; and skin. Orthologous to human SEBOX (SEBOX homeobox).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: homeobox OG-9; homeobox protein SEBOX; MGC106355; OG; OG9; OG9 homeobox; Og9x; skin-, embryo-, brain- and oocyte-specific homeobox
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
GRCm391178,394,328 - 78,395,907 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1178,394,273 - 78,395,907 (+)EnsemblGRCm39 Ensembl
GRCm381178,503,513 - 78,505,081 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1178,503,447 - 78,505,081 (+)EnsemblGRCm38mm10GRCm38
MGSCv371178,317,015 - 78,318,583 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361178,319,708 - 78,321,276 (+)NCBIMGSCv36mm8
Celera1188,135,586 - 88,137,154 (+)NCBICelera
Cytogenetic Map11B5NCBI
cM Map1146.74NCBI
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

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Mouse Sebox homeobox gene expression in skin, brain, oocytes, and two-cell embryos. Cinquanta M, etal., Proc Natl Acad Sci U S A 2000 Aug 1;97(16):8904-9.
2. Mouse brain organization revealed through direct genome-scale TF expression analysis. Gray PA, etal., Science 2004 Dec 24;306(5705):2255-7.
3. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
4. MGDs mouse GO annotations MGD data from the GO Consortium
5. 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.
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8855241   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11386760   PMID:12477932   PMID:14681479   PMID:16141072   PMID:16141073   PMID:18287559   PMID:18753614  
PMID:20059953   PMID:20412781   PMID:20932939   PMID:21267068   PMID:21873635   PMID:22805237   PMID:22988430   PMID:24952961   PMID:25679966   PMID:26949938  


Genomics

Comparative Map Data
Sebox
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391178,394,328 - 78,395,907 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1178,394,273 - 78,395,907 (+)EnsemblGRCm39 Ensembl
GRCm381178,503,513 - 78,505,081 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1178,503,447 - 78,505,081 (+)EnsemblGRCm38mm10GRCm38
MGSCv371178,317,015 - 78,318,583 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361178,319,708 - 78,321,276 (+)NCBIMGSCv36mm8
Celera1188,135,586 - 88,137,154 (+)NCBICelera
Cytogenetic Map11B5NCBI
cM Map1146.74NCBI
SEBOX
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381728,363,506 - 28,365,199 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1728,363,506 - 28,365,199 (-)EnsemblGRCh38hg38GRCh38
GRCh371726,690,528 - 26,692,221 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361723,715,417 - 23,719,114 (-)NCBINCBI36Build 36hg18NCBI36
Celera1723,553,047 - 23,554,023 (-)NCBICelera
Cytogenetic Map17q11.2NCBI
HuRef1722,899,698 - 22,900,674 (-)NCBIHuRef
CHM1_11726,754,222 - 26,755,198 (-)NCBICHM1_1
T2T-CHM13v2.01729,305,357 - 29,307,050 (-)NCBIT2T-CHM13v2.0
Sebox
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81063,897,265 - 63,898,136 (+)NCBIGRCr8
mRatBN7.21063,399,215 - 63,400,086 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1063,399,165 - 63,400,606 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1068,031,858 - 68,032,729 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01067,537,189 - 67,538,060 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01063,006,717 - 63,007,588 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01065,771,370 - 65,774,748 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1065,772,443 - 65,773,314 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01065,869,667 - 65,871,914 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41064,613,725 - 64,614,596 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11064,627,347 - 64,628,219 (+)NCBI
Celera1062,375,790 - 62,376,661 (+)NCBICelera
Cytogenetic Map10q25NCBI
Sebox
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554814,769,063 - 4,769,953 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554814,768,121 - 4,770,611 (+)NCBIChiLan1.0ChiLan1.0
SEBOX
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21936,091,865 - 36,097,416 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11737,972,244 - 37,975,553 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01728,408,417 - 28,410,456 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11728,911,695 - 28,912,596 (+)NCBIpanpan1.1PanPan1.1panPan2
SEBOX
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1942,614,770 - 42,616,412 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl942,614,941 - 42,630,864 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha941,771,703 - 41,773,168 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0943,433,952 - 43,435,417 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl943,434,650 - 43,439,934 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1942,218,182 - 42,219,647 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0942,509,401 - 42,510,866 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0942,586,467 - 42,587,932 (-)NCBIUU_Cfam_GSD_1.0
Sebox
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560241,641,436 - 41,643,003 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365384,519,186 - 4,520,815 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365384,519,197 - 4,520,912 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEBOX
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1244,646,443 - 44,648,425 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11244,646,731 - 44,648,981 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21246,559,018 - 46,561,367 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SEBOX
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11622,130,183 - 22,131,889 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1622,130,941 - 22,131,889 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660757,996,854 - 7,997,802 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sebox
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624786967,234 - 969,884 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Sebox
42 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1534
Count of miRNA genes:553
Interacting mature miRNAs:688
Transcripts:ENSMUST00000001130, ENSMUST00000125670
Prediction methods:Microtar, 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
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11688027789019734Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1912420496897826Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112180736495881231Mouse
13208569Bmiq10_mbody mass index QTL 10 (mouse)113589082784890826Mouse
1301328Mol4_mmodifier of LPS-response 4 (mouse)Not determined113628257783481356Mouse
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
1300765Bbaa4_mB.burgdorferi-associated arthritis 4 (mouse)Not determined114618516780185262Mouse
1301988Bmd11_mbone mineral density 11 (mouse)Not determined114631940780319522Mouse
1301830Ssta4_msusceptibility to Salmonella typhimurium antigens 4 (mouse)Not determined115007819184078411Mouse
13524840Ppiq9a_mprepulse inhibition QTL 9a (mouse)115249438586494385Mouse
1300774Pgia7_mproteoglycan induced arthritis 7 (mouse)Not determined115339058887390737Mouse
4141830Pregq1_mpregnancy QTL 1 (mouse)Not determined115412675283733652Mouse
4142121Tmc1m2_mTmc1 modifier 2 (mouse)Not determined1156864027114157957Mouse
1300664Etohcta9_methanol conditioned taste aversion 9 (mouse)Not determined115775466091754758Mouse
1300924Ity2_mimmunity to S. typhimurium 2 (mouse)Not determined15850803087695238Mouse
4141982Skts-fp2_mskin tumor susceptibility in FVB and PWK 2 (mouse)Not determined5871926685066529Mouse
1301987Pid3_mprior incubation determinant 3 (mouse)Not determined116168682088699728Mouse
1301319Dautb4_mdopamine uptake transporter binding 4 (mouse)Not determined116215600596156153Mouse
27226730Tibmd1_mtibia midshaft diameter 1, 5 week (mouse)1162590826109390826Mouse
1301999Lmr15_mleishmaniasis resistance 15 (mouse)Not determined116331940781830473Mouse
10044004Stzid3_mstreptozotocin induced diabetes susceptibility 3 (mouse)Not determined116331940794063918Mouse
11039502Ltpr6b_mLeishmania tropica response 6b (mouse)116483033698830473Mouse
11039501Ltpr6a_mLeishmania tropica response 6a (mouse)116483033698830473Mouse
11039515Ltpr6_mLeishmania tropica response 6 (mouse)116483033698830473Mouse
1357766Si5lq6_mserum IGFBP-5 level QTL 6 (mouse)Not determined1166733420100733652Mouse
1301546Pcir2_mperiosteal circumference 2 (mouse)Not determined1166733420100733652Mouse
1301833Tbbmd5_mtotal body bone mineral density 5 (mouse)Not determined1166733420100733652Mouse
1300628Lgth6_mbody length 6 (mouse)Not determined1166733420100733652Mouse
4141012Femwf6_mfemur work to failure 6 (mouse)Not determined66733420100733652Mouse
1300784Prdt3_mprion disease incubation time 3 (mouse)Not determined1166733420100733652Mouse
4142316Ity2b_mimmunity to S. typhimurium 2b (mouse)Not determined116707819179813912Mouse
27226783Tibl5_mtibia length 5, 5 week (mouse)1168190826101890826Mouse
1558812Rafar_mretinoic acid induced forelimb autopod reduction (mouse)Not determined1170691198104691366Mouse
1301681Sle13_msystematic lupus erythematosus susceptibility 13 (mouse)Not determined1170691198104691366Mouse
1300651Pcyts3_mplasmacytoma susceptibility 3 (mouse)Not determined1170691198104691366Mouse
4141339Nilac2_mnicotine induced locomotor activity 2 (mouse)Not determined1170691198104691366Mouse
1301404Sbmd4_mspinal bone mineral density 4 (mouse)Not determined1172019649106019734Mouse
1301078Alcp2_malcohol preference locus 2 (mouse)Not determined117220979684731462Mouse
1301310Tmevd5_mTheiler's murine encephalomyelitis virus induced demyelinating disease susceptibility 5 (mouse)Not determined1172726125106726289Mouse
4142348Pstc2_mperiosteal circumference 2 (mouse)Not determined1172818615106818733Mouse
10043866Adip19_madiposity 19 (mouse)Not determined1172818615106818733Mouse
12903994Opfaq3_mopen field activity QTL 3 (mouse)117373754182069425Mouse
11038695Par8_mpulmonary adenoma resistance 8 (mouse)1177063779111063918Mouse
1301414Heal10_mwound healing/regeneration 10 (mouse)Not determined1177437183111437322Mouse
10045616Heal25_mwound healing/regeneration 25 (mouse)Not determined1177437183111437322Mouse
4141365Ltxs3_mlethal factor toxin susceptibility 3 (mouse)Not determined117757387380746358Mouse
1302124Eae7_msusceptibility to experimental allergic encephalomyelitis 7 (mouse)Not determined117757387399377820Mouse
10413882Moe1_mmodifier of epilepsy 1 (mouse)1177770978111771099Mouse

Markers in Region
AI256434  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381178,502,179 - 78,502,299UniSTSGRCm38
MGSCv371178,315,681 - 78,315,801UniSTSGRCm37
Celera1188,134,252 - 88,134,372UniSTS
Cytogenetic Map11B5UniSTS
cM Map1145.0UniSTS
cM Map1145.09UniSTS
Whitehead/MRC_RH11997.6UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000001130   ⟹   ENSMUSP00000001130
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1178,394,273 - 78,395,907 (+)Ensembl
GRCm38.p6 Ensembl1178,503,447 - 78,505,081 (+)Ensembl
RefSeq Acc Id: ENSMUST00000125670   ⟹   ENSMUSP00000129606
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1178,394,325 - 78,395,900 (+)Ensembl
GRCm38.p6 Ensembl1178,503,499 - 78,505,074 (+)Ensembl
RefSeq Acc Id: NM_008759   ⟹   NP_032785
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391178,394,328 - 78,395,907 (+)NCBI
GRCm381178,503,513 - 78,505,081 (+)ENTREZGENE
MGSCv371178,317,015 - 78,318,583 (+)RGD
Celera1188,135,586 - 88,137,154 (+)RGD
cM Map11 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_032785 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC52829 (Get FASTA)   NCBI Sequence Viewer  
  AAH98184 (Get FASTA)   NCBI Sequence Viewer  
  BAE25374 (Get FASTA)   NCBI Sequence Viewer  
  EDL15584 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000001130
  ENSMUSP00000001130.7
  ENSMUSP00000129606.3
GenBank Protein P70368 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_032785   ⟸   NM_008759
- UniProtKB: P70368 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000129606   ⟸   ENSMUST00000125670
RefSeq Acc Id: ENSMUSP00000001130   ⟸   ENSMUST00000001130

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P70368-F1-model_v2 AlphaFold P70368 1-190 view protein structure

Promoters
RGD ID:6848987
Promoter ID:MM_XEF:1175
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Liver,   Spleen
Transcripts:NM_001083896
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361178,315,109 - 78,315,609 (+)MPROMDB
RGD ID:6822037
Promoter ID:MM_KWN:8719
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Liver
Transcripts:OTTMUST00000000464,   UC007KJL.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361178,316,546 - 78,317,046 (+)MPROMDB
RGD ID:8675732
Promoter ID:EPDNEW_M15897
Type:single initiation site
Name:Sebox_1
Description:Mus musculus SEBOX homeobox , 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
GRCm381178,503,502 - 78,503,562EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:108012 AgrOrtholog
Ensembl Genes ENSMUSG00000001103 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000001130 ENTREZGENE
  ENSMUST00000001130.8 UniProtKB/Swiss-Prot
  ENSMUST00000125670.3 UniProtKB/TrEMBL
Gene3D-CATH Homeodomain-like UniProtKB/Swiss-Prot
InterPro Homeobox-like_sf UniProtKB/Swiss-Prot
  Homeobox_dom UniProtKB/Swiss-Prot
  SEBOX UniProtKB/Swiss-Prot
KEGG Report mmu:18292 UniProtKB/Swiss-Prot
MGD MGI:108012 ENTREZGENE
NCBI Gene 18292 ENTREZGENE
PANTHER HOMEOBOX PROTEIN SEBOX UniProtKB/Swiss-Prot
  PTHR47777 UniProtKB/Swiss-Prot
Pfam Homeodomain UniProtKB/Swiss-Prot
PhenoGen Sebox PhenoGen
PROSITE HOMEOBOX_1 UniProtKB/Swiss-Prot
  HOMEOBOX_2 UniProtKB/Swiss-Prot
SMART HOX UniProtKB/Swiss-Prot
Superfamily-SCOP SSF46689 UniProtKB/Swiss-Prot
UniProt E9Q4C2_MOUSE UniProtKB/TrEMBL
  P70368 ENTREZGENE, UniProtKB/Swiss-Prot