rubcn (rubcn)


Basic Information

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

Chromosome Information

Item Value
chromosome id NC_047605.1
NCBI id CM018551.1
chromosome length 26640196
location 10565259 ~ 10579393 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_034308893.1
GTGTAaacactgcgcatgcgcaatgCAGTAAGGCGTGTGTAAGGAGGAATTTCGCTCGGGAACTCTGACAGTTGTGTAAAATTGAGCTCGGACTTTATATTTTCTGTCTAATAAAATATGGCCGGATAATAATAAACTACAGGAGAGTTGAAGATGGAGATCTGCTCAGAGGCGGACAGTGTGGAGAAAAGACGTGAACACTGGAAGCTCCTGTCCAACCTGAAGACAACCGTCGAAGGACTTCTGTCTACAAATAACCCAAATGTCTGGTCTCGCTATGGAGGATTGCAGCGACTTCACAAAGACATGACCAACATCCTGAGTCATGGCCTCAAACACGAACAGGTGTACTATAAGCAGAAGGATTACTGGCGCTTTGTGTGGTGTCTGCGGTCCATCAGTCCCAGTCTTGCTCCTCATGTAGAACAgttcagtCAGATGGAGCCGGTGTTAAgcagcagtgttcagtgtgagagTGATAAGGCTGAGCGTTGGCTCCTCCACAGCCTGCAGAGTCACACACTCTCCATACAACTAAAACCCCTGatcacacaccacaacaccacccGCAAGTACtatacagACGAGGCGTTTCTTCTGAGTGAGCTGCATGTGGCAGCCATGTTTCAGTGTTTGGAGGCGGTGGAGCAGAACGACGCACGGCTGCTTGCCCTCATCAACACCACCCGCctgTCCTATTTGAAGGAGTGTGTTCCTGTGGATCTGCTCACCTCTCCGCAGTGTGTGCTGCCTGGAGTTTCCATACGCACACACGCGCCGTCCTGCTCATtcagagacaacacacacacttcatacaccGAGAGGAGTACAGatgcagcagtgtgtgtaagcGCCTCGGGGGCCCCGTGGGCGTGTTTGAGCACTGACCAAAGCATCTTGGAACCACTGATAACCCAGAATTCTCAGACCGACTCCACCCATCCTGTTAACCCTGCCCCCTCTGAGGGTGGAgactgtgatggtgatgatgggcCAGAGTATCTCGCCATCGGGAACCTGGGGAGGCGGAGCCGCAGAGGTTCTGGCAGCTCGGCACAAAGCACCGAGCACTCTCAGATCAGGGCCCACATacctgaagctccgcccccttcccaAAGACGCAGCTCCTTCTCTGATATGGAAAGGGGAAAGAGACGAAGCTTCAGGGGTCACGCAAGGTCCCTGTCTGATACAGGGGTcatgcagaaacacaaacaagGAGGGAACCAGAGGAAAATCACCATTATAATAGAGGATCCCGCTGAAGagtcaGCTGTAGATGAGCAGTGTGTGAGTAGTTTCGGGCCTTTCTCCCCTCACAGCAGTGACAGCAGTCACAGTTCTCTCTACATGGAGGCCGGAGGACTTCAGTATGGTAGCGGGTCTGATGGATTGTTCCGGAAGCCGTCAGAAGGTCAGAGTCTGATCAGCTACTTGTCAGAGCAGGACTTTGGCAGCTGTGCAGATCTGGAGAAGGAGAATGCACACTTCAGCATCTCCGAATCTCTGATTGCCGCCATCGAGCTAATGAAATGTAAGATGAGGGCGGAGGAGGCAGATGAGGATGGAGACAGCGACAGTGAGATCCAGCAGCTCAAACAGAAGATCCGTCTGCGCAGACAGCAGATCCGCCGCAACCGCCTGCAAACTCCCAGCTCTACCCACCAAActcttCCCTCCACAGACAGTGGTGGATCACTGCGGAGCTCCAGGGATTCCCTGCTCCACTCTGACTCTGGATCAGCTGATGATGTGGAGGACCCTGTGCTGAGAGATGCAGATGTTAAACAGAATGTAAATCTGAGCAGCAGGTCCTTCATCAGCTCTGATTCTGTgtCTCAGTGGTTGTTGCAGTCGAATAGTGCTGAATCAGTTGCAATGGGGCTGCTGCGTCAGTTTGAGGGTTTGCAGCTTCCCGCTGCCTCTGAACTTGAGTGGCTTGTCCCTGAACATGATGCTCCTCAgaaggtgctgccgATGCCTGACTCGGTGCCGATCTCTCCGGATGATGCTGCTGCCGATtgttttatttgcagCCCTATTGTATCCTCATATTttactctgtgtttgtgtgtgttcaggaggaAGGTGTTGgtgatgaagcagaattacAGGTGTGCAGGATGTGGAACTCGTATTGACCCAGattaCATTAAGAGGCTGCGTTACTGCGAGTACCTAGGCCGGTATTTCTGTCAGTGTTGCCATGAAAACGCGGTTGCCGTGGTGCCAGGGCGCGTCCTGTGTAAATGGGATTTCAGTAAATATTACGTCAGTAACTTTGCCCGAGACCTGTTGCGAAAAATTGCCCAGGATCCTTTGTTCAACCTCAACGACATCAACAGCGGCTTGTACAAGAAGGTGAAGAACCTGGAGGCCGTGCGGgtctTGAGGCTGCAGCTGTTCCACATGAAGAACCTCTTTAAAACCTGCCGTCTAGCCAAAGAAGTCCTGCAGCACTTTGACTCAGTTCCTGCACACTTGACTGAGGATCTCCACCTGTTTTCTCTGAATGACCTGACAGCCGTGCGTGCCGGTGACCTCGCACCCAAGCTGCGTGACCTTGTGCGGGTGGGGTCAGAGCATGTCGCTTCCTGTGTGCTGTGTCAGGCAAAGGGATTCGTTTGTGAGTTCTGTGGGAATGATAAGGACATCATCTTCCCCTTTGAGCTGAACAAGTGTCGCCGCTGTGAGgaatgCAGTGCGTGTTATCACCGCTCGTGCTTTAAGAACAAGAGTGTGTGTCCGCGGTGTCGCCGCCTGGCCGAGAGACGAGAGAGGATgaacagcacaaacacagaggaggaggaggggcaataacacacacagacacacacactcactcacactcactcacacactcacatatcaCTGCTTTAGattaaatgtgtaatgtgtgatattgtgttACTGCAGATATGCTGACTCTGaccattttgttaaaaatctttatttttttattttcagagatTTTTATGTCACATCaaaaatcagtgtgtttaaattatttctcatttatttttgtgtgtgtacctcatCAGCACTTTGTGTTTTACATTGAACAGGTTTGTgtgattgttttgtgtgtgtttgtatgtgtttaatCAGGTAATACAGCGGGTCTCACtacatatatgtattttataaatatagaaaattaatgtaATCAAATTGTTTAACCAGTATTGAAACCTAATAACAATGTTAGCATAATGCTAACTATGAGTGAAATCACTGTTGGGTTAgttactctctctcacacacacacacagacaattttCTATAGATTCTAATCTTCAGTCTGTGACTGAGTGTGTAAATAAACTCATATGGTAATGataccactgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgcctgcgtGCACAGCAGCTCTGCATTAACCTGATGCTAACATGACCAATGCTCTTTCTGTCACACaaatttttgttcttttatattttcagcCTTTGTGTGTAAATGGAGTAAATCAGTTTCACGCTCCATCTCACTCCTGATTCTCATCACTTCATCCTAAAAGGCTTTTATTTGAATAAACCTGAGATTAAAATGCACTACTGAGAAAATGTGTATGAAAGTTaaataatgtgatataaatTTACTATTAAAGACGTTCAGACTGTTTTA

Function

symbol description
rubcn Predicted to enable phosphatidylinositol phosphate binding activity. Predicted to be involved in negative regulation of autophagosome maturation; negative regulation of endocytosis; and negative regulation of phosphatidylinositol 3-kinase activity. Predicted to act upstream of or within autophagy. Predicted to be located in endosome and lysosome. Predicted to be active in early endosome and late endosome. Human ortholog(s) of this gene implicated in autosomal recessive spinocerebellar ataxia 15. Orthologous to human RUBCN (rubicon autophagy regulator).

NR:

description
PREDICTED: run domain Beclin-1-interacting and cysteine-rich domain-containing protein-like isoform X1

GO: NA

KEGG:

id description
K19330 RUBCN; run domain Beclin-1 interacting and cysteine-rich containing protein

RNA

RNA id representative length rna type GC content exon number start site end site
XM_034308893.1 True 3678 mRNA 0.48 21 10565259 10579393

Neighbor

gene id symbol gene type direction distance location
LOC113536420 NA coding upstream 1766 10555285 ~ 10563493 (+)
cx36.7 LOC108270620 coding upstream 81648 10482171 ~ 10483611 (+)
lmnl3 LOC108270534,LOC108439631 coding upstream 85936 10460121 ~ 10479323 (+)
saxo2 saxo2 coding upstream 307681 10251725 ~ 10257578 (+)
il16 il16 coding upstream 743030 9792080 ~ 9822229 (+)
tctex1d2 tctex1d2 coding downstream 38419 10617812 ~ 10623164 (+)
LOC113536756 LOC108271257 coding downstream 70865 10650258 ~ 10674052 (+)
LOC113536667 armc9 coding downstream 534251 11113644 ~ 11160226 (+)
b3gnt7 b3gnt7 coding downstream 596704 11176097 ~ 11181854 (+)
alpi.1 LOC108270517,LOC108410621,LOC105900923,LOC107698042,LOC107550664 coding downstream 781571 11360964 ~ 11379995 (+)
G179428 NA non-coding upstream 67547 10497488 ~ 10497712 (+)
G179427 NA non-coding upstream 68119 10496648 ~ 10497140 (+)
G179426 NA non-coding upstream 72790 10492033 ~ 10492469 (+)
G179425 NA non-coding upstream 73486 10486697 ~ 10491773 (+)
G179212 NA non-coding upstream 304651 10256766 ~ 10260608 (+)
LOC113536738 NA non-coding downstream 203732 10783125 ~ 10784114 (+)
G179558 NA non-coding downstream 225712 10805105 ~ 10805311 (+)
G179561 NA non-coding downstream 229643 10809036 ~ 10809271 (+)
G179572 NA non-coding downstream 284256 10863649 ~ 10863850 (+)
G179628 NA non-coding downstream 490196 11069589 ~ 11069817 (+)
LOC113536578 NA other upstream 2294509 8253421 ~ 8270750 (+)
trnar-ucg_8 NA other upstream 2317171 8248016 ~ 8248088 (+)
trnar-acg_6 NA other upstream 2320235 8244952 ~ 8245024 (+)
trnar-ucg_6 NA other upstream 2321611 8243355 ~ 8243648 (+)
rpl37a rpl37a,RPL37A,rl37a,zgc:171772,LOC107564751,LOC107567628 other upstream 3293939 7267831 ~ 7271320 (+)
LOC113536516 ephb3,LOC107687281,LOC107668659,LOC102790569,LOC107744192 other downstream 231277 10810670 ~ 10850923 (+)
G179632 NA other downstream 516760 11096153 ~ 11098811 (+)
G179643 NA other downstream 580953 11160346 ~ 11161597 (+)
G179758 psmd1 other downstream 849220 11428613 ~ 11430897 (+)
G180121 NA other downstream 1475565 12054958 ~ 12055749 (+)

Expression


Co-expression Network