Nhej1 (nonhomologous end-joining factor 1) - Rat Genome Database

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Gene: Nhej1 (nonhomologous end-joining factor 1) Rattus norvegicus
Analyze
Symbol: Nhej1
Name: nonhomologous end-joining factor 1
RGD ID: 1359338
Description: Predicted to enable DNA end binding activity and DNA polymerase binding activity. Predicted to be involved in DNA metabolic process; lymphocyte differentiation; and response to ionizing radiation. Predicted to be located in fibrillar center and nucleoplasm. Predicted to be part of DNA ligase IV complex and DNA-dependent protein kinase-DNA ligase 4 complex. Predicted to be active in site of double-strand break. Human ortholog(s) of this gene implicated in severe combined immunodeficiency 124. Orthologous to human NHEJ1 (non-homologous end joining factor 1); PARTICIPATES IN non-homologous end joining pathway of double-strand break repair; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2-nitrofluorene; 4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC363251; non-homologous end-joining factor 1; protein cernunnos; similar to 1700029B21Rik protein; XRCC4-like factor
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8983,974,995 - 84,071,161 (-)NCBIGRCr8
mRatBN7.2976,526,322 - 76,622,488 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl976,526,324 - 76,622,444 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx984,970,826 - 85,066,627 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0990,099,730 - 90,195,531 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0988,485,932 - 88,581,731 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0982,230,230 - 82,327,923 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl982,230,232 - 82,327,534 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0981,999,491 - 82,097,184 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4974,309,152 - 74,408,397 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1974,456,135 - 74,555,379 (-)NCBI
Celera974,096,462 - 74,192,613 (-)NCBICelera
Cytogenetic Map9q33NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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Original Reference(s)
Nhej1Ratadenosine deaminase deficiency  ISONHEJ1 (Homo sapiens)8554872ClinVar Annotator: match by term: Bubble boy diseaseClinVarPMID:12604777 more ...
Nhej1Ratalacrima, achalasia, and impaired intellectual development syndrome  ISONHEJ1 (Homo sapiens)8554872ClinVar Annotator: match by term: Alacrima more ...ClinVarPMID:28492532
Nhej1Ratcerebrotendinous xanthomatosis  ISONHEJ1 (Homo sapiens)8554872ClinVar Annotator: match by term: Cerebrotendinous XanthomatosisClinVarPMID:28492532
Nhej1Ratgenetic disease  ISONHEJ1 (Homo sapiens)8554872ClinVar Annotator: match by term: Inborn genetic diseasesClinVarPMID:25741868 and PMID:28492532
Nhej1RatMicrophthalmia/Coloboma 13  ISONHEJ1 (Homo sapiens)8554872ClinVar Annotator: match by term: Microphthalmia/coloboma 13ClinVarPMID:25741868 and PMID:37580330
Nhej1Ratmyofibrillar myopathy 1  ISONHEJ1 (Homo sapiens)8554872ClinVar Annotator: match by term: Desmin-related myofibrillar myopathyClinVarPMID:28492532
Nhej1RatNeurodevelopmental Disorders  ISONHEJ1 (Homo sapiens)8554872ClinVar Annotator: match by term: Neurodevelopmental disorderClinVarPMID:25741868
Nhej1Ratparoxysmal nonkinesigenic dyskinesia 1  ISONHEJ1 (Homo sapiens)8554872ClinVar Annotator: match by term: Paroxysmal nonkinesigenic dyskinesiaClinVarPMID:28492532
Nhej1Ratpolydactyly  ISONHEJ1 (Homo sapiens)8554872ClinVar Annotator: match by term: PolydactylyClinVar 
Nhej1Ratsevere combined immunodeficiency  ISONHEJ1 (Homo sapiens)8554872ClinVar Annotator: match by term: Severe combined immunodeficiency diseaseClinVarPMID:12604777 more ...
Nhej1Ratsevere combined immunodeficiency 124  ISONHEJ1 (Homo sapiens)8554872ClinVar more ...ClinVarPMID:12604777 more ...
Nhej1Ratsyndactyly type 1  ISONHEJ1 (Homo sapiens)8554872ClinVar Annotator: match by term: Syndactyly type 1ClinVar 
Nhej1Ratsyndromic microphthalmia 9  ISONHEJ1 (Homo sapiens)8554872ClinVar Annotator: match by term: Isolated anophthalmia-microphthalmia syndromeClinVarPMID:25741868 and PMID:37580330
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Nhej1Ratsevere combined immunodeficiency 124  ISONHEJ1 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTD 
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Nhej1Ratchoroid disease  ISONHEJ1 (Canis lupus familiaris)9068941Choroidal hypoplasia and NHEJ1-relatedOMIAPMID:10701187 more ...
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Nhej1RatMicrophthalmia/Coloboma 13  ISONHEJ1 (Homo sapiens)7240710 OMIM 
Nhej1Ratsevere combined immunodeficiency 124  ISONHEJ1 (Homo sapiens)7240710 OMIM 

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Nhej1Rat1,2-dimethylhydrazine multiple interactionsISONhej1 (Mus musculus)6480464[1 and 2-Dimethylhydrazine co-treated with Folic Acid] results in decreased expression of NHEJ1 mRNACTDPMID:22206623
Nhej1Rat2,3,7,8-tetrachlorodibenzodioxine affects expressionISONhej1 (Mus musculus)6480464Tetrachlorodibenzodioxin affects the expression of NHEJ1 mRNACTDPMID:21570461
Nhej1Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionEXP 6480464Tetrachlorodibenzodioxin results in increased expression of NHEJ1 mRNACTDPMID:33387578
Nhej1Rat2-nitrofluorene increases expressionEXP 64804642-nitrofluorene results in increased expression of NHEJ1 mRNACTDPMID:22484513
Nhej1Rat4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one increases expressionEXP 64804644-(N-methyl-N-nitrosamino)-1-(3-pyridyl)-1-butanone results in increased expression of NHEJ1 mRNACTDPMID:22484513
Nhej1Rat6-propyl-2-thiouracil decreases expressionEXP 6480464Propylthiouracil results in decreased expression of NHEJ1 mRNACTDPMID:30047161
Nhej1Ratacetamide increases expressionEXP 6480464acetamide results in increased expression of NHEJ1 mRNACTDPMID:31881176
Nhej1Rataflatoxin B1 increases expressionISONhej1 (Mus musculus)6480464Aflatoxin B1 results in increased expression of NHEJ1 mRNACTDPMID:19770486
Nhej1Rataflatoxin B1 increases expressionEXP 6480464Aflatoxin B1 results in increased expression of NHEJ1 mRNACTDPMID:22484513 more ...
Nhej1Ratall-trans-retinoic acid decreases expressionISONHEJ1 (Homo sapiens)6480464Tretinoin results in decreased expression of NHEJ1 mRNACTDPMID:33167477
Nhej1Ratamitrole decreases expressionEXP 6480464Amitrole results in decreased expression of NHEJ1 mRNACTDPMID:30047161
Nhej1Ratanthracen-2-amine increases expressionEXP 64804642-anthramine results in increased expression of NHEJ1 mRNACTDPMID:23038007
Nhej1Rataristolochic acid A increases expressionISONHEJ1 (Homo sapiens)6480464aristolochic acid I results in increased expression of NHEJ1 mRNACTDPMID:33212167
Nhej1Ratarsane multiple interactionsISONHEJ1 (Homo sapiens)6480464[[sodium arsenite results in increased abundance of Arsenic] co-treated with [manganese chloride results in increased abundance of Manganese]] results in increased expression of NHEJ1 mRNA and [sodium arsenite results in increased abundance of Arsenic] which results in increased expression of NHEJ1 mRNACTDPMID:39836092
Nhej1Ratarsenic atom multiple interactionsISONHEJ1 (Homo sapiens)6480464[[sodium arsenite results in increased abundance of Arsenic] co-treated with [manganese chloride results in increased abundance of Manganese]] results in increased expression of NHEJ1 mRNA and [sodium arsenite results in increased abundance of Arsenic] which results in increased expression of NHEJ1 mRNACTDPMID:39836092
Nhej1Ratbenzo[a]pyrene multiple interactionsISONhej1 (Mus musculus)6480464Benzo(a)pyrene promotes the reaction [AHR protein binds to NHEJ1 promoter]CTDPMID:19654925
Nhej1Ratbenzo[a]pyrene decreases expressionISONHEJ1 (Homo sapiens)6480464Benzo(a)pyrene results in decreased expression of NHEJ1 mRNACTDPMID:32234424
Nhej1Ratbenzo[a]pyrene affects methylationISONHEJ1 (Homo sapiens)6480464Benzo(a)pyrene affects the methylation of NHEJ1 5' UTRCTDPMID:27901495
Nhej1Ratbenzo[a]pyrene diol epoxide I decreases expressionISONHEJ1 (Homo sapiens)64804647 more ...CTDPMID:20382639
Nhej1Ratbeta-lapachone decreases expressionISONHEJ1 (Homo sapiens)6480464beta-lapachone results in decreased expression of NHEJ1 mRNACTDPMID:38218311

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Biological Process
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Nhej1RatB cell differentiation involved_inISSUniProtKB:Q9H9Q41600115GO_REF:0000024UniProtGO_REF:0000024
Nhej1RatB cell differentiation involved_inISONHEJ1 (Homo sapiens)1624291 PMID:16439204RGDPMID:16439204
Nhej1RatB cell differentiation involved_inIEAUniProtKB:Q9H9Q4 and ensembl:ENSP000003493131600115GO_REF:0000107EnsemblGO_REF:0000107
Nhej1Ratbiological_process  ND 159840707/2014: no relevant rat dataRGD 
Nhej1RatDNA damage response involved_inIEAUniProtKB-KW:KW-02271600115GO_REF:0000043UniProtGO_REF:0000043
Nhej1RatDNA repair involved_inIEAUniProtKB-KW:KW-02341600115GO_REF:0000043UniProtGO_REF:0000043
Nhej1Ratdouble-strand break repair involved_inIEAInterPro:IPR0153811600115GO_REF:0000002InterProGO_REF:0000002
Nhej1Ratdouble-strand break repair via nonhomologous end joining involved_inISONHEJ1 (Homo sapiens)1624291 PMID:16439204 more ...RGDPMID:16439204 more ...
Nhej1Ratdouble-strand break repair via nonhomologous end joining involved_inIEAUniProtKB:Q9H9Q4 and ensembl:ENSP000003493131600115GO_REF:0000107EnsemblGO_REF:0000107
Nhej1Ratdouble-strand break repair via nonhomologous end joining involved_inIEAUniProtKB:Q3KNJ2 and ensembl:ENSMUSP000001167971600115GO_REF:0000107EnsemblGO_REF:0000107
Nhej1Ratdouble-strand break repair via nonhomologous end joining involved_inISONhej1 (Mus musculus)1624291 PMID:27798842 and PMID:28051062RGDPMID:27798842 and PMID:28051062
Nhej1Ratdouble-strand break repair via nonhomologous end joining involved_inIBAMGI:1922820 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Nhej1Ratdouble-strand break repair via nonhomologous end joining involved_inIEAARBA:ARBA000279241600115GO_REF:0000117UniProtGO_REF:0000117
Nhej1Ratdouble-strand break repair via nonhomologous end joining involved_inISSUniProtKB:Q9H9Q41600115GO_REF:0000024UniProtGO_REF:0000024
Nhej1Ratdouble-strand break repair via nonhomologous end joining involved_inISSUniProtKB:Q9H9Q48553261PMID:16439205UniProt 
Nhej1Ratimmunoglobulin V(D)J recombination involved_inIEAUniProtKB:Q9H9Q4 and ensembl:ENSP000003493131600115GO_REF:0000107EnsemblGO_REF:0000107
Nhej1Ratimmunoglobulin V(D)J recombination involved_inISONHEJ1 (Homo sapiens)1624291 PMID:20558749RGDPMID:20558749
Nhej1Ratimmunoglobulin V(D)J recombination involved_inISSUniProtKB:Q9H9Q41600115GO_REF:0000024UniProtGO_REF:0000024
Nhej1Ratresponse to ionizing radiation involved_inISSUniProtKB:Q9H9Q48553261PMID:16439205UniProt 
Nhej1Ratresponse to ionizing radiation involved_inISONHEJ1 (Homo sapiens)1624291 PMID:16439205RGDPMID:16439205
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Cellular Component
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Original Reference(s)
Nhej1Ratchromosome located_inIEAUniProtKB-SubCell:SL-04681600115GO_REF:0000044UniProtGO_REF:0000044
Nhej1Ratchromosome located_inIEAUniProtKB-KW:KW-01581600115GO_REF:0000043UniProtGO_REF:0000043
Nhej1RatDNA ligase IV complex part_ofIBAPANTHER:PTN002085789 and SGD:S0000042551600115GO_REF:0000033GO_CentralGO_REF:0000033
Nhej1RatDNA-dependent protein kinase-DNA ligase 4 complex part_ofIEAUniProtKB:Q9H9Q4 and ensembl:ENSP000003493131600115GO_REF:0000107EnsemblGO_REF:0000107
Nhej1RatDNA-dependent protein kinase-DNA ligase 4 complex part_ofISONHEJ1 (Homo sapiens)1624291 PMID:34352203RGDPMID:34352203
Nhej1RatDNA-dependent protein kinase-DNA ligase 4 complex part_ofISSUniProtKB:Q9H9Q41600115GO_REF:0000024UniProtGO_REF:0000024
Nhej1Ratfibrillar center located_inIEAUniProtKB:Q9H9Q4 and ensembl:ENSP000003493131600115GO_REF:0000107EnsemblGO_REF:0000107
Nhej1Ratfibrillar center located_inISONHEJ1 (Homo sapiens) more ...1624291 RGDGO_REF:0000052
Nhej1Ratnonhomologous end joining complex part_ofISSUniProtKB:Q9H9Q41600115GO_REF:0000024UniProtGO_REF:0000024
Nhej1Ratnonhomologous end joining complex part_ofIEAUniProtKB:Q9H9Q4 and ensembl:ENSP000003493131600115GO_REF:0000107EnsemblGO_REF:0000107
Nhej1Ratnonhomologous end joining complex part_ofISONHEJ1 (Homo sapiens)1624291 PMID:20383123 and PMID:25941166RGDPMID:20383123 and PMID:25941166
Nhej1Ratnucleoplasm located_inIEAUniProtKB:Q9H9Q4 and ensembl:ENSP000003493131600115GO_REF:0000107EnsemblGO_REF:0000107
Nhej1Ratnucleoplasm located_inISONHEJ1 (Homo sapiens) more ...1624291 RGDGO_REF:0000052
Nhej1Ratnucleus located_inIEAUniProtKB-SubCell:SL-01911600115GO_REF:0000044UniProtGO_REF:0000044
Nhej1Ratnucleus located_inIEAUniProtKB:Q9H9Q4 and ensembl:ENSP000003493131600115GO_REF:0000107EnsemblGO_REF:0000107
Nhej1Ratnucleus located_inISSUniProtKB:Q9H9Q41600115GO_REF:0000024UniProtGO_REF:0000024
Nhej1Ratnucleus located_inISSUniProtKB:Q9H9Q48553261PMID:16439205UniProt 
Nhej1Ratnucleus located_inIEAInterPro:IPR0153811600115GO_REF:0000002InterProGO_REF:0000002
Nhej1Ratnucleus is_active_inISONHEJ1 (Homo sapiens)1624291 PMID:20558749RGDPMID:20558749
Nhej1Ratnucleus located_inIEAUniProtKB-KW:KW-05391600115GO_REF:0000043UniProtGO_REF:0000043
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Molecular Function
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RGD Manual Annotations


  
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Original Reference(s)
Nhej1Ratnon-homologous end joining pathway of double-strand break repair   ISONHEJ1 (Homo sapiens)8662352 RGD 

Imported Annotations - KEGG (archival)

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Original Reference(s)
Nhej1Ratnon-homologous end joining pathway of double-strand break repair   IEA 6907045 KEGGrno:03450

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#
Reference Title
Reference Citation
1. XLF interacts with the XRCC4-DNA ligase IV complex to promote DNA nonhomologous end-joining. Ahnesorg P, etal., Cell. 2006 Jan 27;124(2):301-13.
2. 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.
3. The mechanism of double-strand DNA break repair by the nonhomologous DNA end-joining pathway. Lieber MR Annu Rev Biochem. 2010;79:181-211. doi: 10.1146/annurev.biochem.052308.093131.
4. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
5. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
6. GOA pipeline RGD automated data pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Comprehensive gene review and curation RGD comprehensive gene curation
10. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
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PMID:15489334   PMID:16439204   PMID:20383123   PMID:21821112   PMID:25288157   PMID:25941166  



Nhej1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8983,974,995 - 84,071,161 (-)NCBIGRCr8
mRatBN7.2976,526,322 - 76,622,488 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl976,526,324 - 76,622,444 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx984,970,826 - 85,066,627 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0990,099,730 - 90,195,531 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0988,485,932 - 88,581,731 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0982,230,230 - 82,327,923 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl982,230,232 - 82,327,534 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0981,999,491 - 82,097,184 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4974,309,152 - 74,408,397 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1974,456,135 - 74,555,379 (-)NCBI
Celera974,096,462 - 74,192,613 (-)NCBICelera
Cytogenetic Map9q33NCBI
NHEJ1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382219,069,357 - 219,160,815 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2219,069,355 - 219,160,869 (-)EnsemblGRCh38hg38GRCh38
GRCh372219,934,079 - 220,025,537 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362219,648,292 - 219,733,767 (-)NCBINCBI36Build 36hg18NCBI36
Celera2213,709,738 - 213,795,304 (-)NCBICelera
Cytogenetic Map2q35NCBI
HuRef2211,793,894 - 211,879,149 (-)NCBIHuRef
CHM1_12219,947,414 - 220,032,919 (-)NCBICHM1_1
T2T-CHM13v2.02219,557,705 - 219,649,239 (-)NCBIT2T-CHM13v2.0
Nhej1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39175,006,505 - 75,101,870 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl175,006,298 - 75,101,844 (-)EnsemblGRCm39 Ensembl
GRCm38174,967,346 - 75,125,226 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl174,967,139 - 75,125,200 (-)EnsemblGRCm38mm10GRCm38
MGSCv37175,013,920 - 75,093,227 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36174,900,346 - 74,988,763 (-)NCBIMGSCv36mm8
Celera175,522,343 - 75,615,823 (-)NCBICelera
Cytogenetic Map1C4NCBI
cM Map138.56NCBI
Nhej1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545314,281,069 - 14,363,876 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545314,278,773 - 14,362,167 (+)NCBIChiLan1.0ChiLan1.0
NHEJ1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213121,706,164 - 121,794,017 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B121,707,845 - 121,806,459 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B106,326,596 - 106,419,928 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B224,926,183 - 225,012,551 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B224,926,183 - 225,008,788 (-)Ensemblpanpan1.1panPan2
NHEJ1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13725,637,214 - 25,719,241 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3725,637,601 - 25,715,372 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3726,463,707 - 26,546,065 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03725,652,649 - 25,735,139 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3725,651,942 - 25,730,865 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13725,557,221 - 25,639,564 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03725,492,303 - 25,574,670 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03725,513,157 - 25,595,616 (-)NCBIUU_Cfam_GSD_1.0
Nhej1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303175,151,965 - 175,235,788 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365691,495,446 - 1,578,590 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365691,494,783 - 1,578,587 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NHEJ1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15121,100,628 - 121,194,042 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115121,100,624 - 121,190,086 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
NHEJ1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110104,981,313 - 105,071,828 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl10104,982,380 - 105,068,999 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604094,328,589 - 94,420,113 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nhej1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248235,864,003 - 5,946,583 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248235,859,157 - 5,944,573 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

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Variants in Nhej1
327 total Variants

Predicted Target Of
Summary Value
Count of predictions:218
Count of miRNA genes:146
Interacting mature miRNAs:150
Transcripts:ENSRNOT00000024444
Prediction methods:Microtar, Miranda, Rnahybrid
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.


1 to 10 of 29 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
7411571Bw138Body weight QTL 13814.30.001body mass (VT:0001259)body weight gain (CMO:0000420)93253550577535505Rat
11353957Bmd92Bone mineral density QTL 920.01tibia mineral mass (VT:1000283)volumetric bone mineral density (CMO:0001553)94611419991114199Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)92526804479271759Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
12879506Pur33Proteinuria QTL 33urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)94464992189649921Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat

1 to 10 of 29 rows
D9Mco48  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2976,618,117 - 76,618,297 (+)MAPPERmRatBN7.2
Rnor_6.0982,323,506 - 82,323,685NCBIRnor6.0
Rnor_5.0982,092,767 - 82,092,946UniSTSRnor5.0
RGSC_v3.4974,404,369 - 74,404,548UniSTSRGSC3.4
Cytogenetic Map9q33UniSTS
D9Mco49  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2976,602,760 - 76,602,961 (+)MAPPERmRatBN7.2
Rnor_6.0982,308,149 - 82,308,349NCBIRnor6.0
Rnor_5.0982,077,410 - 82,077,610UniSTSRnor5.0
RGSC_v3.4974,389,012 - 74,389,212UniSTSRGSC3.4
Celera974,173,244 - 74,173,444UniSTS
Cytogenetic Map9q33UniSTS
D9Mco50  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2976,582,216 - 76,582,401 (+)MAPPERmRatBN7.2
Rnor_6.0982,287,606 - 82,287,790NCBIRnor6.0
Rnor_5.0982,056,867 - 82,057,051UniSTSRnor5.0
RGSC_v3.4974,368,111 - 74,368,295UniSTSRGSC3.4
Celera974,152,748 - 74,152,932UniSTS
Cytogenetic Map9q33UniSTS




alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31


1 to 22 of 22 rows
RefSeq Transcripts NM_001014217 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001432765 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001432766 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001432767 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001432768 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001432769 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001432770 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006245240 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006245241 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006245242 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596523 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596524 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039083877 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267391 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267392 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267393 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267394 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063267395 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005488935 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC079033 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
1 to 22 of 22 rows

Ensembl Acc Id: ENSRNOT00000024444   ⟹   ENSRNOP00000024444
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl976,526,324 - 76,622,146 (-)Ensembl
Rnor_6.0 Ensembl982,230,232 - 82,327,534 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000098045   ⟹   ENSRNOP00000077416
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl976,526,324 - 76,622,444 (-)Ensembl
RefSeq Acc Id: NM_001014217   ⟹   NP_001014239
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8983,974,995 - 84,070,817 (-)NCBI
mRatBN7.2976,526,322 - 76,622,146 (-)NCBI
Rnor_6.0982,230,230 - 82,327,534 (-)NCBI
Rnor_5.0981,999,491 - 82,097,184 (-)NCBI
RGSC_v3.4974,309,152 - 74,408,397 (-)RGD
Celera974,096,462 - 74,192,613 (-)RGD
Sequence:
RefSeq Acc Id: XM_006245240   ⟹   XP_006245302
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8983,974,995 - 84,071,157 (-)NCBI
mRatBN7.2976,526,322 - 76,622,488 (-)NCBI
Rnor_6.0982,230,230 - 82,327,923 (-)NCBI
Rnor_5.0981,999,491 - 82,097,184 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006245241   ⟹   XP_006245303
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8983,974,995 - 84,070,950 (-)NCBI
mRatBN7.2976,526,322 - 76,622,001 (-)NCBI
Rnor_6.0982,230,230 - 82,327,734 (-)NCBI
Rnor_5.0981,999,491 - 82,097,184 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006245242   ⟹   XP_006245304
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8983,974,995 - 84,070,950 (-)NCBI
mRatBN7.2976,526,322 - 76,622,275 (-)NCBI
Rnor_6.0982,230,230 - 82,327,734 (-)NCBI
Rnor_5.0981,999,491 - 82,097,184 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017596523   ⟹   XP_017452012
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8983,974,995 - 84,070,669 (-)NCBI
mRatBN7.2976,526,322 - 76,622,001 (-)NCBI
Rnor_6.0982,230,230 - 82,327,734 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017596524   ⟹   XP_017452013
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8983,974,995 - 84,070,950 (-)NCBI
mRatBN7.2976,526,322 - 76,622,275 (-)NCBI
Rnor_6.0982,230,230 - 82,327,734 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039083877   ⟹   XP_038939805
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8983,974,995 - 84,071,149 (-)NCBI
mRatBN7.2976,526,322 - 76,622,475 (-)NCBI
RefSeq Acc Id: XM_063267391   ⟹   XP_063123461
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8984,008,232 - 84,071,149 (-)NCBI
RefSeq Acc Id: XM_063267392   ⟹   XP_063123462
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8984,028,880 - 84,071,149 (-)NCBI
RefSeq Acc Id: XM_063267393   ⟹   XP_063123463
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8984,002,163 - 84,071,149 (-)NCBI
RefSeq Acc Id: XM_063267394   ⟹   XP_063123464
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8984,002,163 - 84,071,161 (-)NCBI
RefSeq Acc Id: XM_063267395   ⟹   XP_063123465
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8983,974,995 - 84,070,939 (-)NCBI
RefSeq Acc Id: XR_005488935
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8983,976,480 - 84,071,149 (-)NCBI
mRatBN7.2976,527,807 - 76,622,475 (-)NCBI
1 to 5 of 14 rows
1 to 5 of 14 rows
RefSeq Acc Id: NP_001014239   ⟸   NM_001014217
- UniProtKB: Q6AYI4 (UniProtKB/Swiss-Prot),   A6JVX2 (UniProtKB/TrEMBL),   A0A8L2QD40 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006245302   ⟸   XM_006245240
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006245304   ⟸   XM_006245242
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006245303   ⟸   XM_006245241
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017452013   ⟸   XM_017596524
- Peptide Label: isoform X1
- UniProtKB: A0A8I5Y7R3 (UniProtKB/TrEMBL),   A6JVX1 (UniProtKB/TrEMBL),   A0A8L2QD40 (UniProtKB/TrEMBL)
- Sequence:
XLF-like coiled-coil region   XLF-like N-terminal

Name Modeler Protein Id AA Range Protein Structure
AF-Q6AYI4-F1-model_v2 AlphaFold Q6AYI4 1-304 view protein structure


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



1 to 24 of 24 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-27099 BioCyc
Ensembl Genes ENSRNOG00000018162 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000098045 ENTREZGENE
Gene3D-CATH 2.170.210.10 UniProtKB/Swiss-Prot
  Helix hairpin bin UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7114269 IMAGE-MGC_LOAD
InterPro NHEJ_factor UniProtKB/Swiss-Prot
  XLF-like_CC UniProtKB/Swiss-Prot
  XLF_fam UniProtKB/Swiss-Prot
  XRCC4-like_N_sf UniProtKB/Swiss-Prot
KEGG Report rno:363251 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93961 IMAGE-MGC_LOAD
NCBI Gene 363251 ENTREZGENE
PANTHER NON-HOMOLOGOUS END-JOINING FACTOR 1 UniProtKB/Swiss-Prot
  NON-HOMOLOGOUS END-JOINING FACTOR 1 UniProtKB/Swiss-Prot
Pfam XLF UniProtKB/Swiss-Prot
  XLF_CC UniProtKB/Swiss-Prot
PhenoGen Nhej1 PhenoGen
RatGTEx ENSRNOG00000018162 RatGTEx
UniProt A0A8I5Y7R3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2QD40 ENTREZGENE, UniProtKB/TrEMBL
  A6JVX1 ENTREZGENE, UniProtKB/TrEMBL
  A6JVX2 ENTREZGENE, UniProtKB/TrEMBL
  NHEJ1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
1 to 24 of 24 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-05 Nhej1  nonhomologous end-joining factor 1  LOC363251  similar to 1700029B21Rik protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-07-29 LOC363251  similar to 1700029B21Rik protein      Symbol and Name status set to provisional 70820 PROVISIONAL