Atg9b (autophagy related 9B) - Rat Genome Database

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Gene: Atg9b (autophagy related 9B) Mus musculus
Analyze
Symbol: Atg9b
Name: autophagy related 9B
RGD ID: 1556917
MGI Page MGI
Description: Predicted to be involved in autophagy of mitochondrion and macroautophagy. Predicted to act upstream of or within autophagosome assembly. Located in autophagosome. Is expressed in brain; future brain; gut; male reproductive gland or organ; and skin. Orthologous to human ATG9B (autophagy related 9B).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Apg; APG9-like 2; Apg912; Apg9l2; Apgdc2; ATG9 autophagy related 9 homolog B; autophagy 9-like 2 protein; autophagy-related protein 9B; eO; eONE; Gm574; N; nitric oxide synthase 3 antisense; nitric oxide synthase 3-overlapping antisense gene protein; Nos3as; sONE
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39524,589,179 - 24,597,141 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl524,589,179 - 24,597,141 (-)EnsemblGRCm39 Ensembl
GRCm38524,384,181 - 24,392,143 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl524,384,181 - 24,392,143 (-)EnsemblGRCm38mm10GRCm38
MGSCv37523,889,999 - 23,897,961 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36523,894,246 - 23,902,208 (-)NCBIMGSCv36mm8
Celera521,333,933 - 21,341,895 (-)NCBICelera
Cytogenetic Map5A3NCBI
cM Map511.49NCBI
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

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. MGDs mouse GO annotations MGD data from the GO Consortium
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Autophagy in the heart and liver during normal aging and calorie restriction. Wohlgemuth SE, etal., Rejuvenation Res. 2007 Sep;10(3):281-92.
5. Mammalian autophagy: core molecular machinery and signaling regulation. Yang Z and Klionsky DJ, Curr Opin Cell Biol. 2010 Apr;22(2):124-31. Epub 2009 Dec 23.
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:15234981   PMID:15755735   PMID:16141072   PMID:16141073   PMID:18799693   PMID:21267068   PMID:21873635  
PMID:22710871   PMID:24194600   PMID:27626380   PMID:27997827   PMID:28740555   PMID:29031735   PMID:32627317   PMID:34131310   PMID:35971776   PMID:38355793  


Genomics

Comparative Map Data
Atg9b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39524,589,179 - 24,597,141 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl524,589,179 - 24,597,141 (-)EnsemblGRCm39 Ensembl
GRCm38524,384,181 - 24,392,143 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl524,384,181 - 24,392,143 (-)EnsemblGRCm38mm10GRCm38
MGSCv37523,889,999 - 23,897,961 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36523,894,246 - 23,902,208 (-)NCBIMGSCv36mm8
Celera521,333,933 - 21,341,895 (-)NCBICelera
Cytogenetic Map5A3NCBI
cM Map511.49NCBI
ATG9B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387151,012,209 - 151,024,499 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7151,012,209 - 151,024,499 (-)EnsemblGRCh38hg38GRCh38
GRCh377150,709,297 - 150,721,586 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367150,340,233 - 150,352,519 (-)NCBINCBI36Build 36hg18NCBI36
Build 347150,146,953 - 150,159,234NCBI
Celera7145,266,630 - 145,278,919 (-)NCBICelera
Cytogenetic Map7q36.1NCBI
HuRef7144,521,635 - 144,533,925 (-)NCBIHuRef
CHM1_17150,717,703 - 150,729,992 (-)NCBICHM1_1
T2T-CHM13v2.07152,185,332 - 152,201,351 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27150,038,886 - 150,051,176 (-)NCBI
Atg9b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8411,678,548 - 11,686,097 (+)NCBIGRCr8
mRatBN7.2410,784,934 - 10,793,832 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl410,786,114 - 10,793,651 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx415,932,374 - 15,939,036 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0411,752,565 - 11,759,227 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0410,104,349 - 10,111,011 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.047,314,369 - 7,322,095 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl47,314,369 - 7,321,029 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.047,325,733 - 7,332,623 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.446,151,128 - 6,157,788 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera46,400,691 - 6,407,351 (+)NCBICelera
Cytogenetic Map4q11NCBI
Atg9b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554915,458,398 - 5,465,551 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554915,458,152 - 5,467,260 (-)NCBIChiLan1.0ChiLan1.0
ATG9B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26187,435,449 - 187,449,421 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1739,445,713 - 39,459,688 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v07142,600,894 - 142,614,336 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17154,752,882 - 154,764,744 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7154,756,535 - 154,764,744 (-)Ensemblpanpan1.1panPan2
ATG9B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11615,072,436 - 15,082,867 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1615,072,312 - 15,080,397 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1615,680,763 - 15,688,684 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01616,794,726 - 16,802,656 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1616,795,686 - 16,802,641 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11615,167,172 - 15,175,100 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01615,748,627 - 15,756,553 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01615,799,326 - 15,807,261 (-)NCBIUU_Cfam_GSD_1.0
Atg9b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244051186,447,684 - 6,459,777 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365276,446,667 - 6,453,511 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365276,445,824 - 6,453,582 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATG9B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl186,200,639 - 6,208,286 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1186,200,246 - 6,208,988 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2186,570,334 - 6,579,023 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ATG9B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.121119,197,387 - 119,209,578 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl21119,198,125 - 119,206,599 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607215,164,824 - 15,177,822 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Atg9b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248005,591,297 - 5,598,739 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248005,589,366 - 5,600,253 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Atg9b
105 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:671
Count of miRNA genes:392
Interacting mature miRNAs:468
Transcripts:ENSMUST00000059401, ENSMUST00000128831, ENSMUST00000138716
Prediction methods:Miranda, Rnahybrid, Targetscan
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301776Skts3_mskin tumor susceptibility 3 (mouse)Not determined52166729555667403Mouse
1301685Estq2_mestradiol regulated response QTL 2 (mouse)Not determined51563408449634190Mouse
11537367Hmtb11_mhemostasis and thrombosis 11 (mouse)52210082364806579Mouse
4141207Imrfq1_mimmune response to Factor IX QTL 1 (mouse)Not determined5812411742124239Mouse
11537368Hmtb10_mhemostasis and thrombosis 10 (mouse)52210082354500318Mouse
7394748Mom5_mmodifier of Min 5 (mouse)Not determined5884767233475637Mouse
15039371Nmrs21_mNAFLD-associated magnetic resonance shift 21 (mouse)5350482337504823Mouse
1301693Sle6_msystemic lupus erythematosus susceptibility 6 (mouse)Not determined5889069387841837Mouse
1357478Kdnw1_mkidney weight 1 (mouse)Not determined5891594940529869Mouse
12904958Gmmq8_mgastrocnemius muscle mass QTL 8 (mouse)5129421124Mouse
14696730Kidlq1_mkidney weight, left QTL 1 (mouse)51356315247563152Mouse
10401122Pgia41_mproteoglycan induced arthritis 41 (mouse)Not determined582314434823280Mouse
1300719Iba5_minduction of brown adipocytes 5 (mouse)Not determined52068699354687134Mouse
1301806Actd2_mactivity-distance traveled 2 (mouse)Not determined5538452039384652Mouse

Markers in Region
UniSTS:235143  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38524,384,497 - 24,384,713UniSTSGRCm38
MGSCv37523,890,315 - 23,890,531UniSTSGRCm37
Celera521,334,249 - 21,334,465UniSTS
Cytogenetic Map5A3UniSTS
cM Map59.0UniSTS
cM Map59.0UniSTS


Expression


Sequence


Ensembl Acc Id: ENSMUST00000059401   ⟹   ENSMUSP00000051864
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl524,589,179 - 24,597,141 (-)Ensembl
GRCm38.p6 Ensembl524,384,181 - 24,392,143 (-)Ensembl
Ensembl Acc Id: ENSMUST00000128831
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl524,592,103 - 24,592,964 (-)Ensembl
GRCm38.p6 Ensembl524,387,105 - 24,387,966 (-)Ensembl
Ensembl Acc Id: ENSMUST00000138716
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl524,589,618 - 24,595,633 (-)Ensembl
GRCm38.p6 Ensembl524,384,620 - 24,390,635 (-)Ensembl
RefSeq Acc Id: NM_001002897   ⟹   NP_001002897
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39524,589,179 - 24,597,141 (-)NCBI
GRCm38524,384,181 - 24,392,143 (-)NCBI
MGSCv37523,889,999 - 23,897,961 (-)RGD
Celera521,333,933 - 21,341,895 (-)RGD
cM Map5 ENTREZGENE
Sequence:
RefSeq Acc Id: XR_004942492
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39524,589,358 - 24,596,992 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001002897 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAS72555 (Get FASTA)   NCBI Sequence Viewer  
  AAS87213 (Get FASTA)   NCBI Sequence Viewer  
  AAS87214 (Get FASTA)   NCBI Sequence Viewer  
  DAA05202 (Get FASTA)   NCBI Sequence Viewer  
  EDL03142 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000051864
  ENSMUSP00000051864.7
GenBank Protein Q6EBV9 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001002897   ⟸   NM_001002897
- UniProtKB: F8VQL8 (UniProtKB/Swiss-Prot),   Q674R6 (UniProtKB/Swiss-Prot),   Q6EBV9 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000051864   ⟸   ENSMUST00000059401

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6EBV9-F1-model_v2 AlphaFold Q6EBV9 1-922 view protein structure

Promoters
RGD ID:6837124
Promoter ID:MM_KWN:41597
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour
Transcripts:OTTMUST00000058963
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36523,893,674 - 23,894,174 (-)MPROMDB
RGD ID:6837125
Promoter ID:MM_KWN:41598
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour
Transcripts:OTTMUST00000058964
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36523,896,081 - 23,896,581 (-)MPROMDB
RGD ID:6886136
Promoter ID:EPDNEW_M6516
Type:initiation region
Name:Atg9b_1
Description:Mus musculus autophagy related 9B , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38524,391,990 - 24,392,050EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2685420 AgrOrtholog
Ensembl Genes ENSMUSG00000038295 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000059401 ENTREZGENE
  ENSMUST00000059401.7 UniProtKB/Swiss-Prot
InterPro Autophagy-rel_prot_9 UniProtKB/Swiss-Prot
KEGG Report mmu:213948 UniProtKB/Swiss-Prot
MGD MGI:2685420 ENTREZGENE
NCBI Gene 213948 ENTREZGENE
PANTHER AUTOPHAGY-RELATED PROTEIN 9B UniProtKB/Swiss-Prot
  PTHR13038 UniProtKB/Swiss-Prot
Pfam APG9 UniProtKB/Swiss-Prot
PhenoGen Atg9b PhenoGen
UniProt ATG9B_MOUSE UniProtKB/Swiss-Prot
  F8VQL8 ENTREZGENE
  Q674R6 ENTREZGENE
  Q6EBV9 ENTREZGENE
UniProt Secondary F8VQL8 UniProtKB/Swiss-Prot
  Q674R6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-06-19 Atg9b  autophagy related 9B  Atg9b  ATG9 autophagy related 9 homolog B (S. cerevisiae)  Symbol and/or name change 5135510 APPROVED