XLOC_009680 (atg5)


Basic Information

Item Value
gene id XLOC_009680
gene name atg5
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007127.7
NCBI id CM002900.2
chromosome length 55266484
location 7380463 ~ 7416532 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00019410
AGTTTCGTGCCATCTTAGGGCTGCATGACATCGCTGGCTGTTGAAGATGAGCTCAACTGTAATGCTTCCTGTCGACATCTAATGAATATTGGTAGCTGAAGACATTCATTATATGTGTCACTTGGAGAACGATGATAATGGCAGATGACAAGGATGTGCTTCGAGATGTTTGGTTTGGAAGGATACCCGCCTGTTTCACACTGTCTCCAGACGAAACCACAGAGAGAGAGGCAGAACCCTACTATCTGCTCCTCCCACGGGTCAGTTACCTGACACTAGTCACTGATAAAgtcaagaaacattttctcaAAGTCATGAAGGCAGAGGATGTGGAGGAAATGTGGTTTGAACACGAGGGAACGCCTCTTAAATGGCACTATCCCATTGGTGTGTTGTTCGACCTCCATGCTTCAAACTCCGCTCTGCCCTGGAATATCACAGTGCACTTCAAGAACTTCCCAGAACAAGACTTGCTTCACTGCTCAACAAACTCTGTGATAGAAGCACATTTCATGTCTTGCATTAAAGAGGCCGATGCACTCAAACATAAAGGCCAGGTCATCAACGATATGCAGAAGAAAGACCATAAACAACTGTGGATGGGTCTGCAGAATGataaaTTTGACCAGTTCTGGGCCATGAATCGCAAACTCATGGAGTATCCCACCGAAGAGGGAGGCTTTCGGTATATCCCCTTTAGAATATATCAGACTATGAGTGACAGACCATTCATCCAGACGCTCTTCCGACCAGTGTCTTCTGAAGGCCAAGCGCTTACACTGGGAGACCTGCTGAAGGAGCTGTTTCCTGCTGCCATTGAGGATGAGCCAAAGAAATTCCAGGTTATGATTCACGGCATTGAACCCCTGCTAGAGACGCCCATCCAGTGGCTAAGTGAACACTTGAGCCACCCCGACAACTTTCTCCACATCAGCATCATCCCTGCACCGAGTGACTGATTCCAGATGATCCAACTGGGATGATGGAGAAGCACGGGTAAAACAAAGGCAGAGACAGTCTGATGGCACACCATTCCTTCCTGTTTTTCTCATTCTCATCCCTGCAGTGGCCTTATTGGGAGTGATGGTCATCCAAACAGAATCACAAAACGACGACACTTTTAAGAAAGAATTCATTTAGAGCTCTCAGACGGGGGTCCCGTGTTCTTtgctgcctttaaaaaaaaaaattcttacattcATACATTTGCACAAGCTTGATGTGATTGTACACCCACATTAACCCTCCCGCTCTCTAATTTGTGAGCGACCTACGTTTAGACTCAGATCTGTTAATTATTAGCCGGGATCCCGTTTGGTGTTTAATGAGGCCACTAAACTGCTGTACTTAGTGCTAAAGGGGCTTGATTATCAATGGTTTTTAGGGATGCAGTCGGGTCAGATGACGTGTGAAATGAATGGATTTCTTGCATAAAACTTTaatcaagaaagaaaaaacagGTATTTGAGGTGACAAAGTTTGGTGACTTCATATATACCGGATCAAATGTGTCAGTGTGTCTGGTTTTGGCAGCCTTGCAGGGGGTCACACAGCTCAGTGGAGGTGATGATGATGCCACGGGGTGATTAGTCACAGGGGATAACAGCACAAACGAAGGCTCTCTTTCCCGGACTCCATTAAGGATATGGTTTACTTTCTTCTAATGATTTTTTTCTGCTAGTTTTGTTCATTCTGAGCCAAATTTTAATCATCGAAATGGACACGCTGCATAAGAAGTAAGTCAGAAGCTACACTTATTTTCCAACGAATTAACCttacagtgtttttttctttaaccGTTTATTTACAACCTGTAGGCAGACTGGCTGTCTGTGTTTAGGGGGGATGTGGGGGACTGTAGATCAGTGCAGCAGACGACACACAGCTGAGAGTGATTATTCGTTTAGAGGAATCGGTGAGTGTTTCACCCCCAGACCGAGACAGAGAGACAGCGGGCAGAAACCGCAGAGCTTACGCCACCACCAGGCGGATTCTCGGCAGACTGTTCTCGAGACAATGCTGTTTGTGTACAAACTTTCAGTCGTTTATATCATTCCTCGTGCGACTCTGAGTAAGTACAGAAATAGAGATGCTGCAACTATGTCACTATTAATAACGCGGTTAACACAACGATGGTTCAAATGTGCATTTGCGTTCTTTTCATGCTGTTCTGTCTTTGCTAGGTTAATTTAAACTGCATTTAATTAAAACGATATTTTATA
>TCONS_00019411
GCTGTTGAAGATGAGCTCAACTGTAATGCTTCCTGTCGACATCTAATGAATGTAATTTACTATTATGTGTCTTTTACTTACGTTTGGATGCAGTAGTGTTTGTAATCGAGACAGTTATGGTGTTGTTACCAGCTCCAAAGATTGGTAGCTGAAGACATTCATTATATGTGTCACTTGGAGAACGATGATAATGGCAGATGACAAGGATGTGCTTCGAGATGTTTGGTTTGGAAGGATACCCGCCTGTTTCACACTGTCTCCAGACGAAACCACAGAGAGAGAGGCAGAACCCTACTATCTGCTCCTCCCACGGGTCAGTTACCTGACACTAGTCACTGATAAAgtcaagaaacattttctcaAAGTCATGAAGGCAGAGGATGTGGAGGAAATGTGGTTTGAACACGAGGGAACGCCTCTTAAATGGCACTATCCCATTGGTGTGTTGTTCGACCTCCATGCTTCAAACTCCGCTCTGCCCTGGAATATCACAGTGCACTTCAAGAACTTCCCAGAACAAGACTTGCTTCACTGCTCAACAAACTCTGTGATAGAAGCACATTTCATGTCTTGCATTAAAGAGGCCGATGCACTCAAACATAAAGGCCAGGTCATCAACGATATGCAGAAGAAAGACCATAAACAACTGTGGATGGGTCTGCAGAATGataaaTTTGACCAGTTCTGGGCCATGAATCGCAAACTCATGGAGTATCCCACCGAAGAGGGAGGCTTTCGGTATATCCCCTTTAGAATATATCAGACTATGAGTGACAGACCATTCATCCAGACGCTCTTCCGACCAGTGTCTTCTGAAGGCCAAGCGCTTACACTGGGAGACCTGCTGAAGGAGCTGTTTCCTGCTGCCATTGAGGATGAGCCAAAGAAATTCCAGGTTATGATTCACGGCATTGAACCCCTGCTAGAGACGCCCATCCAGTGGCTAAGTGAACACTTGAGCCACCCCGACAACTTTCTCCACATCAGCATCATCCCTGCACCGAGTGACTGATTCCAGATGATCCAACTGGGATGATGGAGAAGCACGGGTAAAACAAAGGCAGAGACAGTCTGATGGCACACCATTCCTTCCTGTTTTTCTCATTCTCATCCCTGCAGTGGCCTTATTGGGAGTGATGGTCATCCAAACAGAATCACAAAACGACGACACTTTTAAGAAAGAATTCATTTAGAGCTCTCAGACGGGGGTCCCGTGTTCTTtgctgcctttaaaaaaaaaaattcttacattcATACATTTGCACAAGCTTGATGTGATTGTACACCCACATTAACCCTCCCGCTCTCTAATTTGTGAGCGACCTACGTTTAGACTCAGATCTGTTAATTATTAGCCGGGATCCCGTTTGGTGTTTAATGAGGCCACTAAACTGCTGTACTTAGTGCTAAAGGGGCTTGATTATCAATGGTTTTTAGGGATGCAGTCGGGTCAGATGACGTGTGAAATGAATGGATTTCTTGCATAAAACTTTaatcaagaaagaaaaaacagGTATTTGAGGTGACAAAGTTTGGTGACTTCATATATACCGGATCAAATGTGTCAGTGTGTCTGGTTTTGGCAGCCTTGCAGGGGGTCACACAGCTCAGTGGAGGTGATGATGATGCCACGGGGTGATTAGTCACAGGGGATAACAGCACAAACGAAGGCTCTCTTTCCCGGACTCCATTAAGGATATGGTTTACTTTCTTCTAATGATTTTTTTCTGCTAGTTTTGTTCATTCTGAGCCAAATTTTAATCATCGAAATGGACACGCTGCATAAGAAGTAAGTCAGAAGCTACACTTATTTTCCAACGAATTAACCttacagtgtttttttctttaaccGTTTATTTACAACCTGTAGGCAGACTGGCTGTCTGTGTTTAGGGGGGATGTGGGGGACTGTAGATCAGTGCAGCAGACGACACACAGCTGAGAGTGATTATTCGTTTAGAGGAATCGGTGAGTGTTTCACCCCCAGACCGAGACAGAGAGACAGCGGGCAGAAACCGCAGAGCTTACGCCACCACCAGGCGGATTCTCGGCAGACTGTTCTCGAGACAATGCTGTTTGTGTACAAACTTTCAGTCGTTTATATCATTCCTCGTGCGACTCTGAGTAAGTACAGAAATAGAGATGCTGCAACTATGTCACTATTAATAACGCGGTTAACACAACGATGGTTCAAATGTGCATTTGCGTTCTTTTCATGCTGTTCTGTCTTTGCTAGGTTAATTTAAACTGCATTTAATTAAAAC

Function

symbol description
atg5 Acts upstream of or within several processes, including autophagosome assembly; heart development; and regulation of skeletal muscle tissue regeneration. Predicted to be located in cytoplasm and membrane. Predicted to be part of Atg12-Atg5-Atg16 complex. Predicted to be active in phagophore assembly site membrane. Is expressed in several structures, including central nervous system; head; liver; male organism; and tail bud. Human ortholog(s) of this gene implicated in autosomal recessive spinocerebellar ataxia 25. Orthologous to human ATG5 (autophagy related 5).

GO:

id name namespace
GO:0006914 autophagy biological_process
GO:0000045 autophagosome assembly biological_process
GO:0007507 heart development biological_process
GO:0006995 cellular response to nitrogen starvation biological_process
GO:0000422 autophagy of mitochondrion biological_process
GO:0044804 autophagy of nucleus biological_process
GO:0043416 regulation of skeletal muscle tissue regeneration biological_process
GO:0006501 C-terminal protein lipidation biological_process
GO:0007399 nervous system development biological_process
GO:0034274 Atg12-Atg5-Atg16 complex cellular_component
GO:0034045 phagophore assembly site membrane cellular_component
GO:0016020 membrane cellular_component
GO:0005737 cytoplasm cellular_component

KEGG:

id description
ko04140 Autophagy - animal
ko04138 Autophagy - yeast
ko04136 Autophagy - other
ko04137 Mitophagy - animal
ko04216 Ferroptosis
ko04621 NOD-like receptor signaling pathway
ko04622 RIG-I-like receptor signaling pathway
ko04211 Longevity regulating pathway
ko04213 Longevity regulating pathway - multiple species
ko05131 Shigellosis
ko04131 Membrane trafficking
ko03029 Mitochondrial biogenesis

ZFIN:

id description
ZDB-GENE-040801-149 Acts upstream of or within several processes, including autophagosome assembly; heart development; and regulation of skeletal muscle tissue regeneration. Predicted to be located in cytoplasm and membrane. Predicted to be part of Atg12-Atg5-Atg16 complex. Predicted to be active in phagophore assembly site membrane. Is expressed in several structures, including central nervous system; head; liver; male organism; and tail bud. Human ortholog(s) of this gene implicated in autosomal recessive spinocerebellar ataxia 25. Orthologous to human ATG5 (autophagy related 5).

Ensembl:

ensembl_id ENSDARG00000023396

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00019410 False 2222 mRNA 0.44 8 7380463 7416532
TCONS_00019411 True 2264 mRNA 0.44 8 7380499 7416521

Neighbor

gene id symbol gene type direction distance location
XLOC_009678 CU466278.2 coding upstream 85510 7227584 ~ 7294953 (+)
XLOC_009679 sri coding upstream 120118 7242610 ~ 7260345 (+)
XLOC_009677 NA coding upstream 148283 7226676 ~ 7232180 (+)
XLOC_009676 bmper coding upstream 185463 7154266 ~ 7195000 (+)
XLOC_009675 NA coding upstream 261895 7118147 ~ 7118568 (+)
XLOC_009681 NA coding downstream 98318 7514850 ~ 7515507 (+)
XLOC_009682 CT574585.2 coding downstream 147995 7564527 ~ 7566095 (+)
XLOC_009683 stx12l coding downstream 210003 7626535 ~ 7641367 (+)
XLOC_009684 popdc3 coding downstream 237373 7653905 ~ 7658707 (+)
XLOC_009685 bves coding downstream 246077 7662609 ~ 7681144 (+)
XLOC_009668 NA non-coding upstream 959014 6395303 ~ 6421449 (+)
XLOC_009659 NA non-coding upstream 1877764 5499274 ~ 5502699 (+)
XLOC_009688 NA non-coding downstream 376189 7792721 ~ 7793768 (+)
XLOC_009691 NA non-coding downstream 938947 8355479 ~ 8372570 (+)
XLOC_009696 NA non-coding downstream 1548357 8964889 ~ 8965839 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000065_00873636_00877487 ATG5 coding CI01000065 null 873636 ~ 877487 (+)