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Analyze GeneStrainQTL List |
 Gene Annotator (Functional Annotation) unavailable |
 Gene Annotator (Annotation Distribution) unavailable |
 Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable |
Gene Annotator (Functional Annotation) |
Gene Annotator (Annotation Distribution) |
Variant Visualizer (Genomic Variants) |
 InterViewer (Protein-Protein Interactions) unavailable |
 Gviewer (Genome Viewer) unavailable |
 Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable |
InterViewer (Protein-Protein Interactions) |
GViewer (Genome Viewer) |
Variant Visualizer (Damaging Variants) |
 Gene Annotator (Annotation Comparison) unavailable |
 OLGA (Gene List Generator) unavailable |
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Gene Annotator (Annotation Comparison) |
OLGA (Gene List Generator) |
Excel (Download) |
 MOET (Multi-Ontology Enrichement) unavailable |
 GOLF (Gene-Ortholog Location Finder) unavailable |
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MOET (Multi-Ontology Enrichement) |
GOLF (Gene-Ortholog Location Finder) |
Imported Annotations - ClinVar | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Term | Qualifier | Evidence | With | Reference | Notes | Source | Original Reference(s) | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| hypoparathyroidism-deafness-renal disease syndrome | ISO | RGD:732616 | 8554872 | ClinVar Annotator: match by term: Barakat syndrome | ClinVar | PMID:25741868 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Gene-Chemical Interaction AnnotationsGene Ontology AnnotationsMolecular Pathway AnnotationsDisease Annotations
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Gene-Chemical Interaction Annotations
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Gene Ontology Annotations
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Molecular Pathway AnnotationsReferences - curated| 1. | Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27. |
| 2. | GOA data from the GO Consortium |
| 3. | Jabs EW, etal., Hum Genet 1994 May;93(5):600-2. |
| 4. | KEGG |
| 5. | Ko YH, etal., J Biol Chem. 2000 Oct 20;275(42):32931-9. |
| 6. | Meyer B, etal., Mol Cell Proteomics. 2007 Oct;6(10):1690-9. Epub 2007 Jun 17. |
| 7. | MGD data from the GO Consortium |
| 8. | NCBI rat LocusLink and RefSeq merged data July 26, 2002 |
| 9. | Pedersen PL, etal., Biochemistry. 1987 Dec 29;26(26):8631-7. |
| 10. | Pihlajamäki J, etal., J Clin Endocrinol Metab. 2009 Sep;94(9):3521-9. doi: 10.1210/jc.2009-0212. Epub 2009 Jun 23. |
| 11. | Pipeline to import KEGG annotations from KEGG into RGD |
| 12. | Pipeline to import SMPDB annotations from SMPDB into RGD |
| 13. | RGD automated data pipeline |
| 14. | RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations |
| 15. | RGD automated import pipeline for gene-chemical interactions |
| 16. | Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11. |
| 17. | Sun L, etal., Brain Res Bull. 2018 Aug 22;142:304-312. doi: 10.1016/j.brainresbull.2018.08.013. |
| 18. | Tapia-Limonchi R, etal., Islets. 2014;6(5-6):e995997. doi: 10.1080/19382014.2014.995997. |
References - uncurated| PubMed | 9736690 12110673 12865426 14651853 17634366 18614015 19946888 22658674 23376485 24625528 25931508 29476059 |
Comparative Map Data| Atp5f1c (Rattus norvegicus - Norway rat) |
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| ATP5F1C (Homo sapiens - human) |
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| Atp5c1 (Mus musculus - house mouse) |
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| Atp5f1c (Chinchilla lanigera - long-tailed chinchilla) |
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| ATP5F1C (Pan paniscus - bonobo/pygmy chimpanzee) |
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| ATP5F1C (Canis lupus familiaris - dog) |
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| Atp5f1c (Ictidomys tridecemlineatus - thirteen-lined ground squirrel) |
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| ATP5F1C (Sus scrofa - pig) |
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| ATP5F1C (Chlorocebus sabaeus - African green monkey) |
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| Atp5f1c (Heterocephalus glaber - naked mole-rat) |
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Position Markers| MARC_5003-5004:996690032:1 |
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QTLs in Region (Rnor_6.0)| The following QTLs overlap with this region. |  | Full Report | | CSV | | TAB | | Printer | | Gviewer |
RNA-SEQ Expression| alimentary part of gastrointestinal system | circulatory system | endocrine system | exocrine system | hemolymphoid system | hepatobiliary system | integumental system | musculoskeletal system | nervous system | renal system | reproductive system | respiratory system | appendage | |
| High | |||||||||||||
| Medium | 3 | 43 | 57 | 41 | 19 | 41 | 8 | 11 | 74 | 35 | 41 | 11 | 8 |
| Low | |||||||||||||
| Below cutoff |
Nucleotide Sequences| RefSeq Transcripts | NM_053825 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
| XM_006254229 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| XM_006254230 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| XM_006254231 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| GenBank Nucleotide | AABR07028501 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
| AAHX01092521 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| BC059158 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| CH473990 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ212577 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ212651 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ212813 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ213008 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ213785 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ213852 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ213883 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ214745 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ214863 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ214998 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ215205 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ215286 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ215351 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ215426 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ215482 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ215847 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ216198 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ216285 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ216385 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ216490 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ216539 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ216647 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ216736 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ218421 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ218995 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ219484 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ219563 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ219689 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ220076 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ220217 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ220355 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ220748 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ224939 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ229987 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ234981 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| L19927 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
| RefSeq Acc Id: | ENSRNOT00000025993 ⟹ ENSRNOP00000025993 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | ENSRNOT00000041346 ⟹ ENSRNOP00000049879 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | ENSRNOT00000064802 ⟹ ENSRNOP00000061946 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | ENSRNOT00000090453 ⟹ ENSRNOP00000068697 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | NM_053825 ⟹ NP_446277 | ||||||||||||||||||||
| RefSeq Status: | PROVISIONAL | ||||||||||||||||||||
| Type: | CODING | ||||||||||||||||||||
| Position: |
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| Sequence: |
GCAGTGAGCCTCGTCTGCCCGACCTTCAAGGTTCTACCATGTTCTCGCGGGCGAGTATTGTCGGhide sequence |
| RefSeq Acc Id: | XM_006254229 ⟹ XP_006254291 | ||||||||||||
| RefSeq Status: | |||||||||||||
| Type: | CODING | ||||||||||||
| Position: |
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| Sequence: |
GAGACTGAGGGCGCTAGCGGAGCAGGCCGCTGCTCCCCGAGCTCCCGCGCACGCGCAGTGAGCChide sequence |
| RefSeq Acc Id: | XM_006254230 ⟹ XP_006254292 | ||||||||||||
| RefSeq Status: | |||||||||||||
| Type: | CODING | ||||||||||||
| Position: |
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| Sequence: |
ATGTTCTCGCGGGCGAGTATTGTCGGGCTGTCGGCCTGCTCCTTGCAGCCGCAATGGATCCAAGhide sequence |
| RefSeq Acc Id: | XM_006254231 ⟹ XP_006254293 | ||||||||||||
| RefSeq Status: | |||||||||||||
| Type: | CODING | ||||||||||||
| Position: |
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| Sequence: |
GGGCAGTTAAAGGTTGCTGAGGAAGGAAGAGACATTTTTTCCCACTGGTGCTAGCACTGGATCChide sequence |
Protein Sequences| Protein RefSeqs | NP_446277 | (Get FASTA) | NCBI Sequence Viewer |
| XP_006254291 | (Get FASTA) | NCBI Sequence Viewer | |
| XP_006254292 | (Get FASTA) | NCBI Sequence Viewer | |
| XP_006254293 | (Get FASTA) | NCBI Sequence Viewer | |
| GenBank Protein | AAA41776 | (Get FASTA) | NCBI Sequence Viewer |
| AAH59158 | (Get FASTA) | NCBI Sequence Viewer | |
| EDL78625 | (Get FASTA) | NCBI Sequence Viewer | |
| P35435 | (Get FASTA) | NCBI Sequence Viewer |
| RefSeq Acc Id: | NP_446277 ⟸ NM_053825 |
| - UniProtKB: | Q6PCU0 (UniProtKB/TrEMBL) |
| - Sequence: |
MFSRASIVGLSACSLQPQWIQVRNMATLKDITRRLKSIKNIQKITKSMKMVAAAKYARAERELKhide sequence |
| RefSeq Acc Id: | XP_006254291 ⟸ XM_006254229 |
| - Peptide Label: | isoform X1 |
| - Sequence: |
MFSRASIVGLSACSLQPQWIQVRNMATLKDITRRLKSIKNIQKITKSMKMVAAAKYARAERELKhide sequence |
| RefSeq Acc Id: | XP_006254292 ⟸ XM_006254230 |
| - Peptide Label: | isoform X2 |
| - Sequence: |
MFSRASIVGLSACSLQPQWIQVRNMATLKDITRRLKSIKNIQKITKSMKMVAAAKYARAERELKhide sequence |
| RefSeq Acc Id: | XP_006254293 ⟸ XM_006254231 |
| - Peptide Label: | isoform X3 |
| - Sequence: |
MATLKDITRRLKSIKNIQKITKSMKMVAAAKYARAERELKPARVYGTGSLALYEKAEIKGPEDKhide sequence |
| RefSeq Acc Id: | ENSRNOP00000049879 ⟸ ENSRNOT00000041346 |
| RefSeq Acc Id: | ENSRNOP00000068697 ⟸ ENSRNOT00000090453 |
| RefSeq Acc Id: | ENSRNOP00000061946 ⟸ ENSRNOT00000064802 |
| RefSeq Acc Id: | ENSRNOP00000025993 ⟸ ENSRNOT00000025993 |
TranscriptomePromoters| RGD ID: | 13700561 | ||||||||
| Promoter ID: | EPDNEW_R11084 | ||||||||
| Type: | initiation region | ||||||||
| Name: | Atp5c1_1 | ||||||||
| Description: | ATP synthase, H+ transporting, mitochondrial F1 complex, gammapolypeptide 1 | ||||||||
| SO ACC ID: | SO:0000170 | ||||||||
| Source: | EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/) | ||||||||
| Experiment Methods: | Single-end sequencing. | ||||||||
| Position: |
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Strain Sequence Variants (Rnor 6.0)
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Damaging Variants| Chromosome | Start Pos | End Pos | Reference Nucleotide | Variant Nucleotide | Variant Type | Strain |
| 17 | 73913564 | 73913565 | G | A | snv | BN/SsNSlc (KyushuU) |
External Database Links| Database | Acc Id | Source(s) |
| AGR Gene | RGD:620011 | AgrOrtholog |
| Ensembl Genes | ENSRNOG00000019223 | Ensembl, ENTREZGENE, UniProtKB/TrEMBL |
| Ensembl Protein | ENSRNOP00000049879 | UniProtKB/TrEMBL |
| ENSRNOP00000061946 | ENTREZGENE, UniProtKB/TrEMBL | |
| Ensembl Transcript | ENSRNOT00000041346 | UniProtKB/TrEMBL |
| ENSRNOT00000064802 | ENTREZGENE, UniProtKB/TrEMBL | |
| Gene3D-CATH | 1.10.20.10 | UniProtKB/TrEMBL |
| IMAGE_CLONE | IMAGE:6920493 | IMAGE-MGC_LOAD |
| InterPro | ATP_synth_F1_ATPase_gsu | UniProtKB/Swiss-Prot |
| ATP_synth_F1_gsu | UniProtKB/Swiss-Prot | |
| ATP_synth_F1_gsu_CS | UniProtKB/Swiss-Prot | |
| BTP | UniProtKB/TrEMBL | |
| Histone-fold | UniProtKB/TrEMBL | |
| KEGG Report | rno:116550 | UniProtKB/TrEMBL |
| MGC_CLONE | MGC:72961 | IMAGE-MGC_LOAD |
| NCBI Gene | 116550 | ENTREZGENE |
| PANTHER | PTHR11693 | UniProtKB/Swiss-Prot |
| Pfam | ATP-synt | UniProtKB/Swiss-Prot |
| Bromo_TP | UniProtKB/TrEMBL | |
| PhenoGen | Atp5f1c | PhenoGen |
| PRINTS | ATPASEGAMMA | UniProtKB/Swiss-Prot |
| PROSITE | ATPASE_GAMMA | UniProtKB/Swiss-Prot |
| SMART | BTP | UniProtKB/TrEMBL |
| Superfamily-SCOP | SSF52943 | UniProtKB/Swiss-Prot |
| TIGRFAMs | ATPsyn_F1gamma | UniProtKB/Swiss-Prot |
| UniGene | Rn.63959 | ENTREZGENE |
| UniProt | ATPG_RAT | UniProtKB/Swiss-Prot, ENTREZGENE |
| Q6PCU0 | ENTREZGENE, UniProtKB/TrEMBL | |
| Q6QI09_RAT | UniProtKB/TrEMBL | |
| UniProt Secondary | F7FFJ9 | UniProtKB/TrEMBL |
Nomenclature History| Date | Current Symbol | Current Name | Previous Symbol | Previous Name | Description | Reference | Status |
|---|---|---|---|---|---|---|---|
| 2018-01-10 | Atp5f1c | ATP synthase F1 subunit gamma | Atp5c1 | ATP synthase, H+ transporting, mitochondrial F1 complex, gamma polypeptide 1 | Nomenclature updated to reflect human and mouse nomenclature | 1299863 | APPROVED |
| 2004-09-10 | Atp5c1 | ATP synthase, H+ transporting, mitochondrial F1 complex, gamma polypeptide 1 | Symbol and Name status set to approved | 1299863 | APPROVED | ||
| 2002-08-07 | Atp5c1 | ATP synthase, H+ transporting, mitochondrial F1 complex, gamma polypeptide 1 | Symbol and Name status set to provisional | 70820 | PROVISIONAL |
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| More on Atp5f1c | |
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Alliance Gene |
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NCBI Gene |
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Ensembl Gene |
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JBrowse: rn5 rn6 |
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NCBI Genome Data Viewer |
| RGD Object Information | |
| RGD ID: | 620011 |
| Created: | 2002-08-06 |
| Species: | Rattus norvegicus |
| Last Modified: | 2020-06-09 |
| Status: | ACTIVE |
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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.
