Afg3l1 (AFG3 (ATPase family gene 3)-like 1) - Rat Genome Database

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Gene: Afg3l1 (AFG3 (ATPase family gene 3)-like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Afg3l1
Name: AFG3 (ATPase family gene 3)-like 1
RGD ID: 1309722
Description: Predicted to enable metalloendopeptidase activity. Predicted to be involved in mitochondrial protein processing. Predicted to be located in mitochondrial inner membrane. Predicted to be part of m-AAA complex; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 3-chloropropane-1,2-diol; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: AFG3(ATPase family gene 3)-like 1; AFG3(ATPase family gene 3)-like 1 (S. cerevisiae); AFG3(ATPase family gene 3)-like 1 (yeast); LOC361436
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81968,417,101 - 68,444,260 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1968,417,082 - 68,446,039 (+)EnsemblGRCr8
mRatBN7.21951,508,612 - 51,535,773 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1951,508,613 - 51,537,396 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1958,303,137 - 58,334,015 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01958,980,313 - 59,007,934 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01961,201,748 - 61,232,626 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd1962,217,108 - 62,245,922 (+)NCBIDahl_SR_JrHsd
Lyon_Normotensive1960,334,831 - 60,362,450 (+)NCBILyon_Normotensive
Lyon_Hypertensive1962,208,328 - 62,235,949 (+)NCBILyon_Hypertensive
F344_StmMcwi1959,948,752 - 59,977,929 (+)NCBIF344_StmMcwi
Rnor_6.01956,272,171 - 56,299,323 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1956,272,162 - 56,299,410 (+)Ensemblrn6Rnor6.0
Rnor_5.01966,982,824 - 67,009,036 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41953,794,261 - 53,821,667 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1950,740,887 - 50,767,138 (+)NCBICelera
RGSC_v3.11953,799,157 - 53,826,665 (+)NCBI
Cytogenetic Map19q12NCBI
JBrowse:




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

Biological Process

Cellular Component

Molecular Function

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 GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932  


Genomics

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:47
Count of miRNA genes:46
Interacting mature miRNAs:47
Transcripts:ENSRNOT00000030399
Prediction methods: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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)194622677874246245Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191032907674246245Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)193236531174246245Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)192409397369093973Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)193628974246245Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191083361874246245Rat
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)194438513474246245Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)193253961574246245Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)196124916174246245Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)193177788874246245Rat
1549835Tcas7Tongue tumor susceptibility QTL 70.001tongue integrity trait (VT:0010553)squamous cell carcinoma of the head and neck tumor number (CMO:0001876)194172254674246245Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19219431774246245Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19219431774246245Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 161 91 90 59 92 59 6 356 192 11 140 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000030399   ⟹   ENSRNOP00000037053
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1968,417,082 - 68,444,257 (+)Ensembl
mRatBN7.2 Ensembl1951,508,669 - 51,535,773 (+)Ensembl
Rnor_6.0 Ensembl1956,272,162 - 56,299,410 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000097117   ⟹   ENSRNOP00000096995
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1968,417,192 - 68,446,039 (+)Ensembl
mRatBN7.2 Ensembl1951,508,613 - 51,537,396 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000101653   ⟹   ENSRNOP00000079059
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1968,417,082 - 68,446,039 (+)Ensembl
mRatBN7.2 Ensembl1951,508,631 - 51,537,396 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000171726   ⟹   ENSRNOP00000105074
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1968,421,715 - 68,446,039 (+)Ensembl
RefSeq Acc Id: NM_001108456   ⟹   NP_001101926
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81968,417,101 - 68,444,260 (+)NCBI
mRatBN7.21951,508,612 - 51,535,773 (+)NCBI
Dahl_SR_JrHsd1962,217,108 - 62,245,922 (+)NCBI
Lyon_Normotensive1960,334,831 - 60,362,450 (+)NCBI
Lyon_Hypertensive1962,208,328 - 62,235,949 (+)NCBI
F344_StmMcwi1959,948,752 - 59,977,929 (+)NCBI
Rnor_6.01956,272,171 - 56,299,323 (+)NCBI
Rnor_5.01966,982,824 - 67,009,036 (+)NCBI
RGSC_v3.41953,794,261 - 53,821,667 (+)RGD
Celera1950,740,887 - 50,767,138 (+)RGD
Sequence:
RefSeq Acc Id: XM_063278164   ⟹   XP_063134234
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81968,417,760 - 68,444,260 (+)NCBI
RefSeq Acc Id: NP_001101926   ⟸   NM_001108456
- UniProtKB: B5DEY1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000037053   ⟸   ENSRNOT00000030399
Ensembl Acc Id: ENSRNOP00000096995   ⟸   ENSRNOT00000097117
Ensembl Acc Id: ENSRNOP00000079059   ⟸   ENSRNOT00000101653
RefSeq Acc Id: XP_063134234   ⟸   XM_063278164
- Peptide Label: isoform X1
- UniProtKB: B5DEY1 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000105074   ⟸   ENSRNOT00000171726
Protein Domains
AAA+ ATPase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZZ20-F1-model_v2 AlphaFold D3ZZ20 1-789 view protein structure

Transcriptome

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

Promoters
RGD ID:13701227
Promoter ID:EPDNEW_R11751
Type:initiation region
Name:Afg3l1_1
Description:AFG3-like 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01956,272,168 - 56,272,228EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309722 AgrOrtholog
BioCyc Gene G2FUF-5322 BioCyc
Ensembl Genes ENSRNOG00000026994 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000030399 ENTREZGENE
  ENSRNOT00000030399.8 UniProtKB/TrEMBL
  ENSRNOT00000097117.2 UniProtKB/TrEMBL
  ENSRNOT00000101653.2 UniProtKB/TrEMBL
  ENSRNOT00000171726 ENTREZGENE
  ENSRNOT00000171726.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.8.60 UniProtKB/TrEMBL
  1.20.58.760 UniProtKB/TrEMBL
  3.40.1690.20 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
InterPro AAA_lid_3 UniProtKB/TrEMBL
  ATP-dep_Zn_Metalloprotease UniProtKB/TrEMBL
  ATPase_AAA+_core UniProtKB/TrEMBL
  ATPase_AAA_core UniProtKB/TrEMBL
  ATPase_AAA_CS UniProtKB/TrEMBL
  FtsH UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  Pept_M41_FtsH_extracell UniProtKB/TrEMBL
  Peptidase_M41 UniProtKB/TrEMBL
  Peptidase_M41-like UniProtKB/TrEMBL
KEGG Report rno:361436 UniProtKB/TrEMBL
NCBI Gene 361436 ENTREZGENE
PANTHER AFG3-LIKE PROTEIN 1 UniProtKB/TrEMBL
  ATP-DEPENDENT PROTEASE UniProtKB/TrEMBL
Pfam AAA UniProtKB/TrEMBL
  AAA_lid_3 UniProtKB/TrEMBL
  FtsH_ext UniProtKB/TrEMBL
  Peptidase_M41 UniProtKB/TrEMBL
PhenoGen Afg3l1 PhenoGen
PROSITE AAA UniProtKB/TrEMBL
RatGTEx ENSRNOG00000026994 RatGTEx
SMART AAA UniProtKB/TrEMBL
Superfamily-SCOP SSF140990 UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
UniProt A0A8I5ZQ14_RAT UniProtKB/TrEMBL
  A0A8I6GMC1_RAT UniProtKB/TrEMBL
  A0ABK0LKP5_RAT UniProtKB/TrEMBL
  B5DEY1 ENTREZGENE, UniProtKB/TrEMBL
  D3ZZ20_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-03-22 Afg3l1  AFG3 (ATPase family gene 3)-like 1  Afg3l1  AFG3(ATPase family gene 3)-like 1 (S. cerevisiae)  Name changed 629549 APPROVED
2008-06-27 Afg3l1  AFG3(ATPase family gene 3)-like 1 (S. cerevisiae)  Afg3l1  AFG3(ATPase family gene 3)-like 1 (yeast)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Afg3l1  AFG3(ATPase family gene 3)-like 1 (yeast)   Afg3l1_predicted  AFG3(ATPase family gene 3)-like 1 (yeast) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Afg3l1_predicted  AFG3(ATPase family gene 3)-like 1 (yeast) (predicted)      Symbol and Name status set to approved 70820 APPROVED