Helt (helt bHLH transcription factor) - Rat Genome Database

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Gene: Helt (helt bHLH transcription factor) Rattus norvegicus
Analyze
Symbol: Helt
Name: helt bHLH transcription factor
RGD ID: 1564073
Description: Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and identical protein binding activity. Predicted to be involved in anterior/posterior pattern specification; regulation of neurogenesis; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including nervous system development; regulation of transcription by RNA polymerase II; and suckling behavior. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Orthologous to human HELT (helt bHLH transcription factor); INTERACTS WITH bisphenol A; Cuprizon; fenvalerate.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: hairy and enhancer of split-related protein HELT; Helt-ps1; HES/HEY-like transcription factor; HES/HEY-like transcription factor, pseudogene 1; Hesl; Hey-like transcription factor; Hey-like transcription factor (zebrafish); LOC498633; RGD1564073; similar to Heslike
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
GRCr81652,723,828 - 52,725,610 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1652,723,739 - 52,726,162 (+)EnsemblGRCr8
mRatBN7.21645,991,227 - 45,993,045 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1645,991,227 - 45,992,960 (+)EnsemblmRatBN7.2
Rnor_6.01649,185,560 - 49,187,293 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1649,185,560 - 49,187,293 (+)Ensemblrn6Rnor6.0
Rnor_5.01648,897,557 - 48,899,320 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41649,271,310 - 49,273,233 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1643,990,135 - 43,991,868 (+)NCBICelera
Cytogenetic Map16q11NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (IBA,IEA,ISO)
transcription regulator complex  (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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:14764602   PMID:15071116   PMID:15375612   PMID:16644143   PMID:16968817   PMID:22920256   PMID:26582913  


Genomics

Comparative Map Data
Helt
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81652,723,828 - 52,725,610 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1652,723,739 - 52,726,162 (+)EnsemblGRCr8
mRatBN7.21645,991,227 - 45,993,045 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1645,991,227 - 45,992,960 (+)EnsemblmRatBN7.2
Rnor_6.01649,185,560 - 49,187,293 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1649,185,560 - 49,187,293 (+)Ensemblrn6Rnor6.0
Rnor_5.01648,897,557 - 48,899,320 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41649,271,310 - 49,273,233 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1643,990,135 - 43,991,868 (+)NCBICelera
Cytogenetic Map16q11NCBI
HELT
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384185,018,490 - 185,020,953 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4185,018,490 - 185,020,953 (+)Ensemblhg38GRCh38
GRCh374185,939,644 - 185,942,107 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 364186,177,077 - 186,178,920 (+)NCBIBuild 36Build 36hg18NCBI36
Celera4183,267,003 - 183,268,846 (+)NCBICelera
Cytogenetic Map4q35.1NCBI
HuRef4181,693,384 - 181,695,227 (+)NCBIHuRef
CHM1_14185,916,557 - 185,918,400 (+)NCBICHM1_1
T2T-CHM13v2.04188,361,903 - 188,364,366 (+)NCBIT2T-CHM13v2.0
Helt
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39846,745,080 - 46,747,785 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl846,745,076 - 46,747,708 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38846,292,043 - 46,294,748 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl846,292,039 - 46,294,671 (-)Ensemblmm10GRCm38
MGSCv37847,377,401 - 47,380,025 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36847,790,864 - 47,793,488 (-)NCBIMGSCv36mm8
Celera848,973,821 - 48,976,445 (-)NCBICelera
Cytogenetic Map8B1.1NCBI
cM Map826.32NCBI
Helt
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540323,996,488 - 23,998,290 (-)Ensembl
ChiLan1.0NW_00495540323,996,488 - 23,998,290 (-)NCBIChiLan1.0ChiLan1.0
HELT
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v23182,755,377 - 182,757,964 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan14183,103,808 - 183,106,395 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v04177,183,619 - 177,186,099 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14189,404,960 - 189,406,918 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4189,405,042 - 189,406,886 (+)EnsemblpanPan2panpan1.1
HELT
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11645,564,986 - 45,567,225 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1645,565,131 - 45,566,884 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1646,052,470 - 46,054,710 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01647,781,611 - 47,783,852 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1647,781,595 - 47,783,564 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11645,748,432 - 45,750,671 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01646,362,009 - 46,364,254 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01646,494,214 - 46,496,455 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Helt
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494333,861,934 - 33,864,392 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365544,245,648 - 4,247,700 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365544,245,684 - 4,247,832 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HELT
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1546,087,696 - 46,090,084 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11546,087,988 - 46,089,986 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
HELT
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.17130,982,298 - 130,988,696 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl7130,985,304 - 130,987,148 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666037111,243,420 - 111,245,377 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Helt
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476915,852,025 - 15,856,041 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462476915,851,432 - 15,854,088 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Helt
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11341,624,342 - 41,626,269 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Helt
7 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:23
Count of miRNA genes:22
Interacting mature miRNAs:23
Transcripts:ENSRNOT00000014360
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)164445512389455123Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)163692878281928782Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)164199206486992064Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16423421266955197Rat
2302057Pia29Pristane induced arthritis QTL 293.60.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)162846870173468701Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164909919691442908Rat
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)163236104377361043Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16423421253708481Rat
631833Sach2Saccharin preference QTL 240.01consumption behavior trait (VT:0002069)calculated saccharin drink intake rate (CMO:0001613)164975766656898388Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)163105803976058039Rat
1298529Arunc1Aerobic running capacity QTL 14exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)163439829479398294Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683908666195506Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683908666195506Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)163188527176885271Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)164445512389455123Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683908666195506Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161773081872536785Rat
2301406Kidm39Kidney mass QTL 390.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)161590580260905802Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683908652786090Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683908666195506Rat

Markers in Region
RH139932  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21645,992,787 - 45,992,982 (+)MAPPERmRatBN7.2
Rnor_6.01649,187,121 - 49,187,315NCBIRnor6.0
Rnor_5.01648,899,118 - 48,899,312UniSTSRnor5.0
RGSC_v3.41649,272,871 - 49,273,065UniSTSRGSC3.4
Celera1643,991,696 - 43,991,890UniSTS
RH 3.4 Map16451.6UniSTS
Cytogenetic Map16q11UniSTS
Helt  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81652,724,302 - 52,725,210 (+)Marker Load Pipeline
mRatBN7.21645,991,700 - 45,992,609 (+)MAPPERmRatBN7.2
Rnor_6.01649,186,034 - 49,186,942NCBIRnor6.0
Rnor_5.01648,898,031 - 48,898,939UniSTSRnor5.0
Celera1643,990,609 - 43,991,517UniSTS
Cytogenetic Map16q11UniSTS


Expression

RNA-SEQ Expression

appendage
ectoderm
endocrine system
endoderm
exocrine system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
1 79 7 6 6 6 5 10 2 73 2 14

Sequence


Ensembl Acc Id: ENSRNOT00000014360   ⟹   ENSRNOP00000014360
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1652,723,739 - 52,726,162 (+)Ensembl
mRatBN7.2 Ensembl1645,991,227 - 45,992,960 (+)Ensembl
Rnor_6.0 Ensembl1649,185,560 - 49,187,293 (+)Ensembl
RefSeq Acc Id: XM_008771272   ⟹   XP_008769494
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81652,723,828 - 52,725,610 (+)NCBI
mRatBN7.21645,991,227 - 45,993,045 (+)NCBI
Rnor_6.01649,185,560 - 49,187,293 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063275987   ⟹   XP_063132057
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81652,723,828 - 52,725,610 (+)NCBI
Protein Sequences
Protein RefSeqs XP_008769494 (Get FASTA)   NCBI Sequence Viewer  
  XP_063132057 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL78882 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000014360
  ENSRNOP00000014360.5
RefSeq Acc Id: XP_008769494   ⟸   XM_008771272
- Peptide Label: isoform X1
- UniProtKB: A6JPP0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000014360   ⟸   ENSRNOT00000014360
RefSeq Acc Id: XP_063132057   ⟸   XM_063275987
- Peptide Label: isoform X2
- UniProtKB: D4ADJ5 (UniProtKB/TrEMBL),   A6JPP0 (UniProtKB/TrEMBL)
Protein Domains
Orange

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ADJ5-F1-model_v2 AlphaFold D4ADJ5 1-240 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564073 AgrOrtholog
BioCyc Gene G2FUF-11340 BioCyc
Ensembl Genes ENSRNOG00000010785 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000014360 ENTREZGENE
  ENSRNOT00000014360.7 UniProtKB/TrEMBL
Gene3D-CATH 4.10.280.10 UniProtKB/TrEMBL
  6.10.250.980 UniProtKB/TrEMBL
InterPro HES_HEY UniProtKB/TrEMBL
  HLH_DNA-bd UniProtKB/TrEMBL
  HLH_DNA-bd_sf UniProtKB/TrEMBL
  Orange UniProtKB/TrEMBL
NCBI Gene 498633 ENTREZGENE
PANTHER BASIC HELIX-LOOP-HELIX TRANSCRIPTION FACTOR, HES-RELATED UniProtKB/TrEMBL
Pfam Hairy_orange UniProtKB/TrEMBL
  HLH UniProtKB/TrEMBL
PhenoGen Helt PhenoGen
PROSITE HLH UniProtKB/TrEMBL
  ORANGE UniProtKB/TrEMBL
RatGTEx ENSRNOG00000010785 RatGTEx
SMART HLH UniProtKB/TrEMBL
Superfamily-SCOP HLH_basic UniProtKB/TrEMBL
  Orange domain-like UniProtKB/TrEMBL
UniProt A6JPP0 ENTREZGENE, UniProtKB/TrEMBL
  D4ADJ5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-03-06 Helt  helt bHLH transcription factor  Helt  HES/HEY-like transcription factor  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-03-05 Helt  HES/HEY-like transcription factor  Helt-ps1  HES/HEY-like transcription factor, pseudogene 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-11-06 Helt  HES/HEY-like transcription factor  Helt  Hey-like transcription factor (zebrafish)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Helt  Hey-like transcription factor (zebrafish)  RGD1564073_predicted  similar to Heslike (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1564073_predicted  similar to Heslike (predicted)  LOC498633  similar to Heslike  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498633  similar to Heslike      Symbol and Name status set to provisional 70820 PROVISIONAL