Atg13 (autophagy related 13) - Rat Genome Database

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Pathways
Gene: Atg13 (autophagy related 13) Chinchilla lanigera
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Symbol: Atg13
Name: autophagy related 13
RGD ID: 8849641
Description: ENCODES a protein that exhibits protein kinase binding (ortholog); protein serine/threonine kinase activator activity (ortholog); INVOLVED IN autophagosome assembly (ortholog); mitophagy (ortholog); negative regulation of cell population proliferation (ortholog); PARTICIPATES IN autophagy pathway; mTOR signaling pathway; ASSOCIATED WITH congenital disorder of glycosylation type IIc (ortholog); intellectual disability (ortholog); Liver Reperfusion Injury (ortholog); FOUND IN Atg1/ULK1 kinase complex (ortholog); cytosol (ortholog); mitochondrion (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: autophagy-related protein 13
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554221,398,593 - 1,432,438 (-)Ensembl
ChiLan1.0NW_0049554221,398,646 - 1,432,440 (-)NCBIChiLan1.0ChiLan1.0
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Atg13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554221,398,593 - 1,432,438 (-)Ensembl
ChiLan1.0NW_0049554221,398,646 - 1,432,440 (-)NCBIChiLan1.0ChiLan1.0
ATG13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381146,617,553 - 46,674,518 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1146,617,527 - 46,674,818 (+)Ensemblhg38GRCh38
GRCh371146,639,103 - 46,696,068 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361146,595,703 - 46,652,644 (+)NCBIBuild 36Build 36hg18NCBI36
Celera1146,786,959 - 46,844,582 (+)NCBICelera
Cytogenetic Map11p11.2NCBI
HuRef1146,345,178 - 46,403,609 (+)NCBIHuRef
CHM1_11146,637,238 - 46,695,980 (+)NCBICHM1_1
T2T-CHM13v2.01146,773,592 - 46,830,534 (+)NCBIT2T-CHM13v2.0
Atg13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39291,504,957 - 91,540,947 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl291,504,963 - 91,540,921 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38291,674,612 - 91,710,597 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl291,674,618 - 91,710,576 (-)Ensemblmm10GRCm38
MGSCv37291,514,782 - 91,550,733 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36291,475,464 - 91,511,415 (-)NCBIMGSCv36mm8
Celera293,064,097 - 93,099,336 (-)NCBICelera
Cytogenetic Map2E1NCBI
cM Map250.63NCBI
Atg13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8398,102,831 - 98,136,741 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl398,101,552 - 98,136,743 (-)EnsemblGRCr8
mRatBN7.2377,647,069 - 77,681,028 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl377,645,790 - 77,681,043 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx381,122,107 - 81,156,207 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0389,721,130 - 89,755,231 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0387,572,391 - 87,606,504 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0380,580,549 - 80,614,554 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl380,581,247 - 80,601,410 (-)Ensemblrn6Rnor6.0
Rnor_5.0387,279,649 - 87,313,654 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4376,056,642 - 76,090,287 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera376,851,283 - 76,885,195 (-)NCBICelera
RGSC_v3.1375,953,473 - 75,986,537 (-)NCBI
Cytogenetic Map3q24NCBI
ATG13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2948,833,991 - 48,878,284 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11148,840,876 - 48,898,053 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01146,567,728 - 46,623,609 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11147,126,380 - 47,182,848 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1147,126,380 - 47,182,850 (+)EnsemblpanPan2panpan1.1
ATG13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11842,834,538 - 42,886,873 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1842,836,755 - 42,886,855 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1841,563,260 - 41,615,540 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01843,490,641 - 43,542,934 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1843,482,301 - 43,542,937 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11842,975,663 - 43,027,961 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01842,531,296 - 42,583,663 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01843,260,591 - 43,313,187 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Atg13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494720,311,338 - 20,361,623 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365622,423,001 - 2,473,232 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365622,424,398 - 2,473,103 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATG13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl215,856,860 - 15,916,109 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1215,856,859 - 15,916,122 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2217,207,885 - 17,266,756 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ATG13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1118,651,872 - 18,712,395 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl118,652,998 - 18,712,482 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666038115,936,173 - 115,995,623 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Atg13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247671,924,672 - 1,953,868 (-)NCBIHetGla 1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000022550   ⟹   ENSCLAP00000022345
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554221,398,593 - 1,432,438 (-)Ensembl
Ensembl Acc Id: ENSCLAT00000022551   ⟹   ENSCLAP00000022346
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554221,398,593 - 1,432,436 (-)Ensembl
Ensembl Acc Id: ENSCLAT00000022552   ⟹   ENSCLAP00000022347
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554221,398,593 - 1,431,719 (-)Ensembl
RefSeq Acc Id: XM_005384010   ⟹   XP_005384067
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554221,398,646 - 1,432,440 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005384011   ⟹   XP_005384068
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554221,398,646 - 1,432,440 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005384012   ⟹   XP_005384069
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554221,398,646 - 1,432,440 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005384014   ⟹   XP_005384071
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554221,398,646 - 1,432,440 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005384015   ⟹   XP_005384072
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554221,398,646 - 1,430,151 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005384016   ⟹   XP_005384073
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554221,398,646 - 1,432,438 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005384018   ⟹   XP_005384075
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554221,398,646 - 1,432,436 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013514204   ⟹   XP_013369658
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554221,398,646 - 1,423,428 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013514205   ⟹   XP_013369659
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554221,398,646 - 1,432,439 (-)NCBI
Sequence:
RefSeq Acc Id: XP_005384071   ⟸   XM_005384014
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_005384069   ⟸   XM_005384012
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_005384068   ⟸   XM_005384011
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_005384075   ⟸   XM_005384018
- Peptide Label: isoform X4
- UniProtKB: A0A8C2VY15 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005384073   ⟸   XM_005384016
- Peptide Label: isoform X3
- UniProtKB: A0A8C2W325 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005384067   ⟸   XM_005384010
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_005384072   ⟸   XM_005384015
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013369659   ⟸   XM_013514205
- Peptide Label: isoform X2
- UniProtKB: A0A8C2VY31 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013369658   ⟸   XM_013514204
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSCLAP00000022346   ⟸   ENSCLAT00000022551
Ensembl Acc Id: ENSCLAP00000022345   ⟸   ENSCLAT00000022550
Ensembl Acc Id: ENSCLAP00000022347   ⟸   ENSCLAT00000022552

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000015328 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000022550 ENTREZGENE
  ENSCLAT00000022550.1 UniProtKB/TrEMBL
  ENSCLAT00000022551 ENTREZGENE
  ENSCLAT00000022551.1 UniProtKB/TrEMBL
  ENSCLAT00000022552 ENTREZGENE
  ENSCLAT00000022552.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.900.10 UniProtKB/TrEMBL
InterPro ATG13 UniProtKB/TrEMBL
  Atg13_N UniProtKB/TrEMBL
  HORMA_dom_sf UniProtKB/TrEMBL
NCBI Gene Atg13 ENTREZGENE
PANTHER AUTOPHAGY-RELATED PROTEIN 13 UniProtKB/TrEMBL
  PTHR13430 UniProtKB/TrEMBL
Pfam ATG13 UniProtKB/TrEMBL
UniProt A0A8C2VY15 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2VY31 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2W325 ENTREZGENE, UniProtKB/TrEMBL