Atg13 (autophagy related 13) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Atg13 (autophagy related 13) Ictidomys tridecemlineatus
Analyze
Symbol: Atg13
Name: autophagy related 13
RGD ID: 12711516
Description: ENCODES a protein that exhibits protein kinase binding (inferred); protein serine/threonine kinase activator activity (inferred); INVOLVED IN autophagosome assembly (ortholog); positive regulation of protein targeting to mitochondrion (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 phagophore assembly site membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: autophagy related 13, transcript variant X1; autophagy related 13, transcript variant X2; autophagy related 13, transcript variant X3; autophagy related 13, transcript variant X4; autophagy related 13, transcript variant X5; autophagy related 13, transcript variant X6; autophagy-related protein 13
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
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 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365622,424,398 - 2,473,103 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


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
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365622,424,398 - 2,473,103 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
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 (+)EnsemblGRCh38hg38GRCh38
GRCh371146,639,103 - 46,696,068 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361146,595,703 - 46,652,644 (+)NCBINCBI36Build 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 Ensembl
GRCm38291,674,612 - 91,710,597 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl291,674,618 - 91,710,576 (-)EnsemblGRCm38mm10GRCm38
MGSCv37291,514,782 - 91,550,733 (-)NCBIGRCm37MGSCv37mm9NCBIm37
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 (-)NCBIGRCr8
mRatBN7.2377,647,069 - 77,681,028 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl377,645,790 - 77,681,043 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx381,122,107 - 81,156,207 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0389,721,130 - 89,755,231 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0387,572,391 - 87,606,504 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0380,580,549 - 80,614,554 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl380,581,247 - 80,601,410 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0387,279,649 - 87,313,654 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4376,056,642 - 76,090,287 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1375,953,473 - 75,986,537 (-)NCBI
Celera376,851,283 - 76,885,195 (-)NCBICelera
Cytogenetic Map3q24NCBI
Atg13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554221,398,593 - 1,432,438 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554221,398,646 - 1,432,440 (-)NCBIChiLan1.0ChiLan1.0
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 (+)Ensemblpanpan1.1panPan2
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1841,563,260 - 41,615,540 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01843,490,641 - 43,542,934 (-)NCBIROS_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_1.0
ATG13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl215,856,860 - 15,916,109 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSSTOT00000005089   ⟹   ENSSTOP00000004568
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365622,423,001 - 2,473,232 (-)Ensembl
Ensembl Acc Id: ENSSTOT00000035848   ⟹   ENSSTOP00000025471
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365622,424,650 - 2,473,232 (-)Ensembl
Ensembl Acc Id: ENSSTOT00000041299   ⟹   ENSSTOP00000027790
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365622,423,001 - 2,473,044 (-)Ensembl
RefSeq Acc Id: XM_005330000   ⟹   XP_005330057
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494720,311,338 - 20,361,611 (-)NCBI
SpeTri2.0NW_0049365622,424,398 - 2,473,102 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005330001   ⟹   XP_005330058
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494720,311,338 - 20,361,614 (-)NCBI
SpeTri2.0NW_0049365622,424,398 - 2,473,103 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013360652   ⟹   XP_013216106
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494720,311,338 - 20,361,615 (-)NCBI
SpeTri2.0NW_0049365622,424,398 - 2,473,102 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013360653   ⟹   XP_013216107
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494720,311,338 - 20,361,604 (-)NCBI
SpeTri2.0NW_0049365622,424,398 - 2,473,101 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013360654   ⟹   XP_013216108
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494720,311,338 - 20,361,609 (-)NCBI
SpeTri2.0NW_0049365622,424,398 - 2,473,101 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013360655   ⟹   XP_013216109
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494720,311,338 - 20,361,609 (-)NCBI
SpeTri2.0NW_0049365622,424,398 - 2,473,100 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040284415   ⟹   XP_040140349
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494720,311,338 - 20,361,614 (-)NCBI
RefSeq Acc Id: XM_040284416   ⟹   XP_040140350
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494720,311,338 - 20,361,623 (-)NCBI
RefSeq Acc Id: XM_040284417   ⟹   XP_040140351
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494720,311,338 - 20,361,620 (-)NCBI
RefSeq Acc Id: XM_040284418   ⟹   XP_040140352
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494720,311,338 - 20,361,616 (-)NCBI
RefSeq Acc Id: XM_040284419   ⟹   XP_040140353
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494720,311,338 - 20,361,613 (-)NCBI
RefSeq Acc Id: XM_040284420   ⟹   XP_040140354
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494720,311,338 - 20,361,618 (-)NCBI
RefSeq Acc Id: XM_040284421   ⟹   XP_040140355
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494720,311,338 - 20,361,618 (-)NCBI
RefSeq Acc Id: XP_013216109   ⟸   XM_013360655
- Peptide Label: isoform X9
- UniProtKB: A0A287D2Q8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013216108   ⟸   XM_013360654
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_013216107   ⟸   XM_013360653
- Peptide Label: isoform X4
- UniProtKB: I3M5G4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013216106   ⟸   XM_013360652
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_005330057   ⟸   XM_005330000
- Peptide Label: isoform X1
- UniProtKB: A0A287CW16 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005330058   ⟸   XM_005330001
- Peptide Label: isoform X1
- UniProtKB: A0A287CW16 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040140350   ⟸   XM_040284416
- Peptide Label: isoform X3
RefSeq Acc Id: XP_040140351   ⟸   XM_040284417
- Peptide Label: isoform X5
RefSeq Acc Id: XP_040140355   ⟸   XM_040284421
- Peptide Label: isoform X11
RefSeq Acc Id: XP_040140354   ⟸   XM_040284420
- Peptide Label: isoform X10
RefSeq Acc Id: XP_040140352   ⟸   XM_040284418
- Peptide Label: isoform X7
RefSeq Acc Id: XP_040140349   ⟸   XM_040284415
- Peptide Label: isoform X1
- UniProtKB: A0A287CW16 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040140353   ⟸   XM_040284419
- Peptide Label: isoform X8
Ensembl Acc Id: ENSSTOP00000004568   ⟸   ENSSTOT00000005089
Ensembl Acc Id: ENSSTOP00000025471   ⟸   ENSSTOT00000035848
Ensembl Acc Id: ENSSTOP00000027790   ⟸   ENSSTOT00000041299

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000005077 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000005089.3 UniProtKB/TrEMBL
  ENSSTOT00000035848.1 UniProtKB/TrEMBL
  ENSSTOT00000041299.1 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 A0A287CW16 ENTREZGENE, UniProtKB/TrEMBL
  A0A287D2Q8 ENTREZGENE, UniProtKB/TrEMBL
  I3M5G4 ENTREZGENE, UniProtKB/TrEMBL