Atoh7 (atonal bHLH transcription factor 7) - Rat Genome Database

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Gene: Atoh7 (atonal bHLH transcription factor 7) Rattus norvegicus
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Symbol: Atoh7
Name: atonal bHLH transcription factor 7
RGD ID: 1304957
Description: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including entrainment of circadian clock by photoperiod; positive regulation of retinal ganglion cell axon guidance; and response to auditory stimulus. Predicted to act upstream of or within several processes, including entrainment of circadian clock; neural retina development; and optic nerve development. Predicted to be located in axon and perikaryon. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in persistent hyperplastic primary vitreous. Orthologous to human ATOH7 (atonal bHLH transcription factor 7); INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; glycidol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: atonal homolog 7; atonal homolog 7 (Drosophila); LOC365564
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22025,530,826 - 25,531,275 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2025,530,826 - 25,531,275 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2026,223,655 - 26,224,104 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02025,576,679 - 25,577,128 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02026,163,308 - 26,163,757 (-)NCBIRnor_WKY
Rnor_6.02027,082,961 - 27,083,410 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2027,082,961 - 27,083,410 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02028,923,499 - 28,923,948 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42025,448,296 - 25,448,745 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12025,462,095 - 25,462,545 (+)NCBI
Celera2026,826,801 - 26,827,250 (-)NCBICelera
Cytogenetic Map20p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:12451142   PMID:21441919   PMID:25710928  


Genomics

Comparative Map Data
Atoh7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22025,530,826 - 25,531,275 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2025,530,826 - 25,531,275 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2026,223,655 - 26,224,104 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02025,576,679 - 25,577,128 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02026,163,308 - 26,163,757 (-)NCBIRnor_WKY
Rnor_6.02027,082,961 - 27,083,410 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2027,082,961 - 27,083,410 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02028,923,499 - 28,923,948 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42025,448,296 - 25,448,745 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12025,462,095 - 25,462,545 (+)NCBI
Celera2026,826,801 - 26,827,250 (-)NCBICelera
Cytogenetic Map20p11NCBI
ATOH7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381068,230,595 - 68,232,113 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1068,230,595 - 68,232,113 (-)EnsemblGRCh38hg38GRCh38
GRCh371069,990,352 - 69,991,870 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361069,660,387 - 69,661,861 (-)NCBINCBI36Build 36hg18NCBI36
Build 341069,660,389 - 69,661,861NCBI
Celera1063,264,910 - 63,266,384 (-)NCBICelera
Cytogenetic Map10q21.3NCBI
HuRef1063,990,057 - 63,991,575 (-)NCBIHuRef
CHM1_11070,272,108 - 70,273,626 (-)NCBICHM1_1
T2T-CHM13v2.01069,099,395 - 69,100,913 (-)NCBIT2T-CHM13v2.0
Atoh7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391062,935,564 - 62,937,059 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1062,935,430 - 62,937,058 (+)EnsemblGRCm39 Ensembl
GRCm381063,099,785 - 63,101,280 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1063,099,651 - 63,101,279 (+)EnsemblGRCm38mm10GRCm38
MGSCv371062,562,904 - 62,563,353 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361062,495,513 - 62,495,962 (+)NCBIMGSCv36mm8
Celera1064,200,808 - 64,201,424 (+)NCBICelera
Cytogenetic Map10B4NCBI
cM Map1032.54NCBI
Atoh7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495542520,559,466 - 20,560,275 (-)NCBIChiLan1.0ChiLan1.0
ATOH7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11067,025,107 - 67,026,148 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01064,714,546 - 64,716,341 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
ATOH7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1419,466,476 - 19,479,279 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl419,478,694 - 19,479,152 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha419,597,398 - 19,611,478 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0419,734,560 - 19,748,678 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl419,748,220 - 19,748,678 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1419,617,322 - 19,631,402 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0419,839,420 - 19,853,518 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0420,182,700 - 20,196,804 (-)NCBIUU_Cfam_GSD_1.0
Atoh7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721361,545,616 - 61,546,620 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493652110,038,765 - 10,039,223 (+)EnsemblSpeTri2.0
SpeTri2.0NW_00493652110,038,345 - 10,039,345 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATOH7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1471,400,980 - 71,401,447 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11471,398,939 - 71,402,479 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21477,410,544 - 77,412,605 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ATOH7
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1963,155,182 - 63,158,935 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl963,157,638 - 63,158,096 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604823,925,365 - 23,927,147 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Atoh7
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247542,605,173 - 2,650,354 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247542,606,689 - 2,610,231 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Atoh7
2 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:40
Count of miRNA genes:35
Interacting mature miRNAs:40
Transcripts:ENSRNOT00000000432
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
4889870Pur30Proteinuria QTL 30190.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20804241029322208Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201175751554435887Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201175751554435887Rat
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)201761783247606836Rat
2317880Alcrsp25Alcohol response QTL 252.3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)201769755054435887Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)201919072154435887Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202510672254435887Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202510672254435887Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202510672254435887Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202520973454435887Rat


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 integumental system musculoskeletal system nervous system renal system reproductive system appendage
High
Medium 1
Low 35 5
Below cutoff 2 6 5 6 5 6 30 2 12 5

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001170482 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACYVU010000324 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000000432   ⟹   ENSRNOP00000000432
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2025,530,826 - 25,531,275 (-)Ensembl
Rnor_6.0 Ensembl2027,082,961 - 27,083,410 (-)Ensembl
RefSeq Acc Id: NM_001170482   ⟹   NP_001163953
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22025,530,826 - 25,531,275 (-)NCBI
Rnor_6.02027,082,961 - 27,083,410 (-)NCBI
Rnor_5.02028,923,499 - 28,923,948 (-)NCBI
RGSC_v3.42025,448,296 - 25,448,745 (+)RGD
Celera2026,826,801 - 26,827,250 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001163953 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001163953   ⟸   NM_001170482
- UniProtKB: D3ZG53 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000000432   ⟸   ENSRNOT00000000432
Protein Domains
bHLH

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZG53-F1-model_v2 AlphaFold D3ZG53 1-149 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:1304957 AgrOrtholog
BioCyc Gene G2FUF-3815 BioCyc
Ensembl Genes ENSRNOG00000000384 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000000432 ENTREZGENE
  ENSRNOP00000000432.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000432 ENTREZGENE
  ENSRNOT00000000432.3 UniProtKB/TrEMBL
Gene3D-CATH 4.10.280.10 UniProtKB/TrEMBL
InterPro Atoh7 UniProtKB/TrEMBL
  HLH_DNA-bd UniProtKB/TrEMBL
  HLH_DNA-bd_sf UniProtKB/TrEMBL
KEGG Report rno:365564 UniProtKB/TrEMBL
NCBI Gene 365564 ENTREZGENE
PANTHER PTHR19290:SF99 UniProtKB/TrEMBL
Pfam HLH UniProtKB/TrEMBL
PhenoGen Atoh7 PhenoGen
PROSITE HLH UniProtKB/TrEMBL
SMART HLH UniProtKB/TrEMBL
Superfamily-SCOP HLH_basic UniProtKB/TrEMBL
UniProt D3ZG53 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-06-24 Atoh7  atonal bHLH transcription factor 7  Atoh7  atonal homolog 7 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Atoh7  atonal homolog 7 (Drosophila)   Atoh7_predicted  atonal homolog 7 (Drosophila) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Atoh7_predicted  atonal homolog 7 (Drosophila) (predicted)      Symbol and Name status set to approved 70820 APPROVED