atg4b (atg4b)


Basic Information

Item Value
gene id atg4b
gene name atg4b
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047596.1
NCBI id CM018542.1
chromosome length 35203048
location 18951689 ~ 18957780 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026916690.2
CCACACGCATGATTTGATTGGATATTACAAGTTTCTTTTCCCCAGATGACAGCGTAGGTTTTTTCTATTAGACGATTTTGGTGTCAGTCAGAGTTCAGTCAACAAGATAGGTTGAATCACAACTGACGGGATGGATGCGGCTACTCTTACCTATGACACACTACGATTTGGGGAGTTTGAGGATTTCCCAGAGACATCCGAGCCTGTCTGGATTCTGGGCAAACAGTCCAATGCTCTGACAGAGAAGGATGAGATTCTGTCGGACATTACTTCACGCTTGTGGTTCACCTACAGAAAGAATTTCCAGGCAATTGGAGGGACAGGGCCTACATCTGACACGGGCTGGGGTTGCATGCTGCGATGTGGACAGATGATTCTTGCTGAAGCGTTGCTCCGTAGACACCTGGGTCGTGagTGGAGATGGGTACGAAGTCAGCGGCCAAGAGAGGAGTACATGAGCATCCTCAATGCTTTCATAGACAAGAAGGACAGCTACTACTCTATTCACCAGATAGCTCAGATGGGAGTGGGAGAGGGCAAATCCATAGGCCAGTGGTATGGCCCGAATACAGTGGCACAAGTACTCAAGAAACTGGCAGTGTTTGACACATGGAGCCGATTGGCAGTTCACGTGGCCATGGACAACACTGTGGTAATCGAGGAAATCAAGAGGTTGTGTATGCCATGGTTGGACTTTGAGAGGAGAGGGTGTGCAGATCCTCTGGAGATGAACGGGTATATGGAGGGGGCATGTGCCATGGCTTtggaagacacagctgtgtggAAACCACTTGTGCTGCTCATCCCCCTGCGTCTGGGCCTCAGCGACATCAATGAGGCCTACATTGAAACTCTAAAGCAATGCTTCATGATGCCTCAGTCTTTAGGGGTTATTGGTGGGAAGCCTAACAGTGCCCATTACTTTATCGGCTATGTTGGTGAGGAGCTCATATACCTGGACCCCCATACAACTCAGCCGGCTGTGGAGCCATGTGAAAACGGAGAGATTCAGGATGACTCCTATCACTGCCAGCACCCACCATGTCGCATGCACATCTGTGAGCTCGACCCATCCATAGCTGTTGGCTTCTTCTGTCAAACGGAGGACGACTTTGATGATTGGTGTTCACATATTCGAAAAATATCGAGCTATAGAGGAGGTCTTCCCATGTTCGAACTTGTAGACAGTCAGCCATCACATCTAATCAACACTGAAGCCATTAATCTCACTCCCGATTTCTCAGATTCGGACCGGCTTGAGCGTTTCTTTGACTCTGAAGATGAGGAGTTTGAGATCCTGTCTTTGtaaggatgagagagagaatgattgTTCAGCATACAGAGCTCAGTGCCACACTCCTGGAGAGGAGCAGTACCACTGACATGAGGCCTGGCTGGCATTTGGTGGCACAGTCACCTGTGTAAAACTCAGCTTCTTGCTACACTGACTGCTCTCTGTGTCATGAGTcctgaggtcagaggtcatcaTCACAAGCTCTGAGGAGTCTCAGTCTGTTCATATTAACACTTAACGTGTATCCATTTTGAGTCTTAACACTTTTTGTTATAAAGTGACTGTGCCTTTTTATGCGCCTACACTAATGCAGATTTGCCATAACTCACTTTCGGTGGTCATCAGGAGCACTGCTGCTCAGAGTATGCTCATGACCTACACTGCTTTGATGTCTGTAGCAAATTGTAAATGAAAACCAAAATGTAAAGGTTACAGACCAAGTAGGTTAGCTTGTGTAGTACAGTACATTTATCAGTGTTTAAAGTATCTGTACACAAgtttattttaagattatttatttactcaacTGTAAATTTATTCAGctgtaatagaaataaaaatgaataaaaata

Function

symbol description
atg4b Predicted to enable cysteine-type endopeptidase activity. Predicted to act upstream of or within autophagy; protein transport; and proteolysis. Predicted to be located in cytoplasm. Is expressed in brain; liver; and muscle. Orthologous to human ATG4B (autophagy related 4B cysteine peptidase).

NR:

description
cysteine protease ATG4B-like

GO:

id name namespace
GO:0006914 autophagy biological_process
GO:0015031 protein transport biological_process
GO:0006508 proteolysis biological_process
GO:0005737 cytoplasm cellular_component
GO:0008234 cysteine-type peptidase activity molecular_function

KEGG:

id description
K08342 ATG4; cysteine protease ATG4

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026916690.2 True 1866 mRNA 0.46 13 18951689 18957780

Neighbor

gene id symbol gene type direction distance location
farp2 farp2 coding upstream 34683 18858439 ~ 18917006 (+)
LOC113527312 NA coding upstream 94527 18841437 ~ 18857162 (+)
dzip1l LOC108271535 coding upstream 336864 18600959 ~ 18614825 (+)
LOC113536767 LOC108272161 coding upstream 537734 18298375 ~ 18413955 (+)
LOC113532395 kyat3,ccbl2,LOC100332215 coding upstream 804772 18139055 ~ 18146917 (+)
kif1aa kif1a,kif1aa,LOC108427666,LOC107593169 coding downstream 30223 18988003 ~ 19049750 (+)
scly scly coding downstream 94342 19052122 ~ 19060672 (+)
klhl30 klhl30,LOC107696751,LOC107753621,LOC107752665,LOC107694118 coding downstream 132104 19089884 ~ 19096027 (+)
crocc2 LOC108272137 coding downstream 139957 19097737 ~ 19152457 (+)
sned1 sned1,LOC106560635,LOC107753672,LOC107694110 coding downstream 196297 19154077 ~ 19196248 (+)
G29561 sox14,LOC103365676,LOC100695210 non-coding upstream 260682 18688653 ~ 18691007 (+)
LOC113530672 NA non-coding upstream 484369 18464884 ~ 18467320 (+)
LOC113536874 NA non-coding upstream 591654 18358202 ~ 18360035 (+)
G29281 znf326 non-coding upstream 866045 18083719 ~ 18085644 (+)
G29106 NA non-coding upstream 1186916 17694754 ~ 17764773 (+)
G29640 NA non-coding downstream 92446 19050226 ~ 19050438 (+)
G29641 NA non-coding downstream 93044 19050824 ~ 19051043 (+)
G29656 NA non-coding downstream 234769 19192549 ~ 19195409 (+)
G29674 NA non-coding downstream 242535 19200315 ~ 19202099 (+)
G29792 NA non-coding downstream 301268 19259048 ~ 19259266 (+)
boka bok,LOC107733256,LOC107752647,LOC107694130,LOC107696759 other upstream 2952 18932683 ~ 18948737 (+)
G29569 hdlbpa,hdlbp,LOC107694132,LOC107733253 other upstream 115968 18774770 ~ 18835721 (+)
trnai-aau NA other upstream 134214 18817402 ~ 18817475 (+)
tomm6 tomm6 other upstream 2550578 16398245 ~ 16401111 (+)
mustn1a LOC108272082,LOC108439813 other upstream 2769380 16181171 ~ 16182309 (+)
LOC113533886 espnl other downstream 103317 19061097 ~ 19087211 (+)
smx5 lsm2,LSM2,smx5 other downstream 576565 19534345 ~ 19537197 (+)
LOC113543059 c11h1orf146 other downstream 1042266 20000046 ~ 20020226 (+)
dlg1 dlg1,LOC108271975,LOC108427717,LOC107738730 other downstream 1579193 20536973 ~ 20658080 (+)
insl5a insl5 other downstream 2057058 21014838 ~ 21017867 (+)

Expression


Co-expression Network