Sim1 (SIM bHLH transcription factor 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Sim1 (SIM bHLH transcription factor 1) Heterocephalus glaber
Analyze
Symbol: Sim1
Name: SIM bHLH transcription factor 1
RGD ID: 18920986
Description: ENCODES a protein that exhibits protein heterodimerization activity (ortholog); INVOLVED IN regulation of DNA-templated transcription (ortholog); ureteric bud development (ortholog); ASSOCIATED WITH brachydactyly (ortholog); Breast Neoplasms (ortholog); diabetes mellitus (ortholog); FOUND IN nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: single-minded family bHLH transcription factor 1; single-minded homolog 1; Single-minded-like protein 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248104,479,589 - 4,558,434 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248104,479,589 - 4,558,735 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
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
nucleus  (IEA)

References
Additional References at PubMed
PMID:21993625   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Sim1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248104,479,589 - 4,558,434 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248104,479,589 - 4,558,735 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
SIM1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386100,385,009 - 100,464,921 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6100,385,009 - 100,464,921 (-)EnsemblGRCh38hg38GRCh38
GRCh376100,832,885 - 100,912,797 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366100,943,471 - 101,018,272 (-)NCBINCBI36Build 36hg18NCBI36
Build 346100,943,470 - 101,018,272NCBI
Celera6101,480,981 - 101,555,761 (-)NCBICelera
Cytogenetic Map6q16.3NCBI
HuRef698,275,663 - 98,350,456 (-)NCBIHuRef
CHM1_16101,098,793 - 101,173,570 (-)NCBICHM1_1
T2T-CHM13v2.06101,558,767 - 101,638,670 (-)NCBIT2T-CHM13v2.0
Sim1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391050,770,794 - 50,865,252 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1050,770,850 - 50,865,248 (+)EnsemblGRCm39 Ensembl
GRCm381050,894,698 - 50,989,156 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1050,894,754 - 50,989,152 (+)EnsemblGRCm38mm10GRCm38
MGSCv371050,615,457 - 50,708,958 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361050,584,066 - 50,677,567 (+)NCBIMGSCv36mm8
Celera1051,744,683 - 51,838,475 (+)NCBICelera
Cytogenetic Map10B3NCBI
cM Map1024.87NCBI
Sim1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82055,409,814 - 55,489,450 (+)NCBIGRCr8
mRatBN7.22053,827,601 - 53,907,219 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2053,828,364 - 53,907,212 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2055,543,215 - 55,626,456 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02055,192,931 - 55,276,173 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02055,885,015 - 55,963,896 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02055,590,810 - 55,674,002 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2055,594,676 - 55,673,995 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02057,192,734 - 57,274,564 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42054,908,178 - 54,988,099 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12054,937,202 - 55,012,573 (+)NCBI
Celera2046,257,466 - 46,336,238 (-)NCBICelera
Cytogenetic Map20q13NCBI
Sim1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541126,173,009 - 26,259,752 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541126,173,009 - 26,256,545 (-)NCBIChiLan1.0ChiLan1.0
SIM1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25120,431,444 - 120,506,816 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16118,308,628 - 118,388,705 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0698,221,476 - 98,301,215 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16102,104,462 - 102,181,062 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6102,104,783 - 102,181,062 (-)Ensemblpanpan1.1panPan2
SIM1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11258,480,744 - 58,552,126 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1258,485,823 - 58,553,192 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1258,239,464 - 58,312,667 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01259,313,324 - 59,386,528 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1259,319,037 - 59,386,575 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11258,666,215 - 58,739,215 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01258,507,210 - 58,580,362 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01258,747,572 - 58,820,839 (-)NCBIUU_Cfam_GSD_1.0
Sim1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494693,381,896 - 93,456,539 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366511,841,054 - 1,911,944 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366511,841,040 - 1,911,944 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SIM1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl167,214,337 - 67,294,397 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1167,213,685 - 67,294,455 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2176,000,269 - 76,071,230 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SIM1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11373,451,838 - 73,527,733 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1373,453,800 - 73,527,198 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604045,749,767 - 45,824,784 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000001570   ⟹   ENSHGLP00000001526
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046248104,479,589 - 4,558,434 (+)Ensembl
RefSeq Acc Id: XM_004862479   ⟹   XP_004862536
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248104,479,589 - 4,558,735 (+)NCBI
RefSeq Acc Id: XM_021242702   ⟹   XP_021098361
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248104,479,589 - 4,558,735 (+)NCBI
Protein Sequences
Protein RefSeqs XP_004862536 (Get FASTA)   NCBI Sequence Viewer  
  XP_021098361 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EHB08618 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000001526
RefSeq Acc Id: XP_004862536   ⟸   XM_004862479
- Peptide Label: isoform X1
- UniProtKB: A0AAX6Q0A2 (UniProtKB/TrEMBL),   G5BH57 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021098361   ⟸   XM_021242702
- Peptide Label: isoform X2
- UniProtKB: A0AAX6RP53 (UniProtKB/TrEMBL),   G5BH57 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000001526   ⟸   ENSHGLT00000001570


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000001168 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000001570 ENTREZGENE
Gene3D-CATH Helix-loop-helix DNA-binding domain UniProtKB/TrEMBL
  PAS domain UniProtKB/TrEMBL
InterPro bHLH_dom UniProtKB/TrEMBL
  HLH_DNA-bd_sf UniProtKB/TrEMBL
  PAC UniProtKB/TrEMBL
  PAS UniProtKB/TrEMBL
  PAS-like_dom_sf UniProtKB/TrEMBL
  PAS_fold UniProtKB/TrEMBL
  PAS_fold_3 UniProtKB/TrEMBL
  SIM_C UniProtKB/TrEMBL
NCBI Gene Sim1 ENTREZGENE
PANTHER HYPOXIA-INDUCIBLE FACTOR 1 ALPHA UniProtKB/TrEMBL
  SINGLE-MINDED HOMOLOG 1 UniProtKB/TrEMBL
Pfam HLH UniProtKB/TrEMBL
  PAS UniProtKB/TrEMBL
  PAS_3 UniProtKB/TrEMBL
  SIM_C UniProtKB/TrEMBL
PROSITE BHLH UniProtKB/TrEMBL
  PAS UniProtKB/TrEMBL
  SIM_C UniProtKB/TrEMBL
SMART HLH UniProtKB/TrEMBL
  PAC UniProtKB/TrEMBL
  PAS UniProtKB/TrEMBL
Superfamily-SCOP HLH, helix-loop-helix DNA-binding domain UniProtKB/TrEMBL
  PYP-like sensor domain (PAS domain) UniProtKB/TrEMBL
UniProt A0AAX6Q0A2 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6RP53 ENTREZGENE, UniProtKB/TrEMBL
  G5BH57 ENTREZGENE, UniProtKB/TrEMBL