G336256 (pabpc1,LOC107672855)


Basic Information

Item Value
gene id G336256
gene name pabpc1,LOC107672855
gene type non-coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047617.1
NCBI id CM018563.1
chromosome length 20335669
location 1738163 ~ 1741007 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>TU398200
AATGACTCAGaatttaaactttatttgaGCAAGCACATTTTCAATTCCGGAGAATTGTTCACATTGCCTGTGCGGTTCTCGGTTCTCCTCTCCGCACCCAGAACCCGGACGCACAGCAGGCgaggaataaaatgaataaaataaagaaagctaGAGggtctgatttttttcccctcctctctATTCTTTTATGGAATTTTCTTTAAAACCCccaattttccattttttttctttttaataattttactcttttttttttcagattttttaaaagataattGACTAGGCCTAGCTTTATCTTCTCTAGGCCTGGCAGAGTTCAgttccatttgtttttttgttttttttttttctttaagtatCATTTCTATCTTTTTGcagttttccatgttttttcgATGTTTAATATGGTTTTTATCCCCCCTCGGTGAAGCAAGTTTGAAAGATCGTCCCTCGGCTTAGACGCTTGGCAATCCGATGGAGTTGGtcacatttttctgttgagCGGCTTCTTTGGCCTGGTGAGCCTTAAGCACAGCAACGGCCTCGtcaacCTTGGAGCGCAGAGACTCTGGAGACTCGAGCATGTGCAGCAGCTCCGAGTTGTCGATCTCCAGCAGCATTCCCGTGATCTTCCCTGCCAGGTCGGAGTGCATGTTCTGGATCAGCGGGAACAGACGCTCACCCAGCATTTGCTTCTGCTCCTGAGGAGGAGCTGCAGCCAGCATGGATGCCGTCAGAGGCTCTTGACCCTGCATGTGAACCGCAggctgaggagagagagagaggaagtcaGTCTGCTAGAACAATAAAACCAGGAAAAGTTATTCACAGTAATCAGAAGAGGAGGCTGAAGCCTGA
>TU398201
AATGACTCAGaatttaaactttatttgaGCAAGCACATTTTCAATTCCGGAGAATTGTTCACATTGCCTGTGCGGTTCTCGGTTCTCCTCTCCGCACCCAGAACCCGGACGCACAGCAGGCgaggaataaaatgaataaaataaagaaagctaGAGggtctgatttttttcccctcctctctATTCTTTTATGGAATTTTCTTTAAAACCCccaattttccattttttttctttttaataattttactcttttttttttcagattttttaaaagataattGACTAGGCCTAGCTTTATCTTCTCTAGGCCTGGCAGAGTTCAgttccatttgtttttttgttttttttttttctttaagtatCATTTCTATCTTTTTGcagttttccatgttttttcgATGTTTAATATGGTTTTTATCCCCCCTCGGTGAAGCAAGTTTGAAAGATCGTCGTccCTCGGCTTAGACGCTTGGCAATCCGATGGAGTTGGtcacatttttctgttgagCGGCTTCTTTGGCCTGGTGAGCCTTAAGCACAGCAACGGCCTCGtcaaccTGGAGCGCAGAGACTCTGGAGACTCGAGCATGTGCAGCAGCTCCGAGTTGTCGATCTCCAGCAGCATTCCCGTGATCTTCCCTGCCAGGTCGGAGTGCATGTTCTGGATCAGCGGGAACAGACGCTCACCCAGCATTTGCTTCTGCTCCTGAGGAGGAGCTGCAGCCAGCATGGATGCCGTCAGAGGCTCTTGACCCTGCATGTGAACCGCAggctgaggagagagagagaggaagtcaGTCTGCTAGAACAATAAAACCAGGAAAAGTTATTCACAGTAATCAGAAGAGGAGGCTGAAGCCTGA

Function

symbol description
pabpc1 Enables RNA binding activity and protein C-terminus binding activity. Involved in negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay and positive regulation of viral genome replication. Located in several cellular components, including cell leading edge; cytoplasmic stress granule; and cytosol. Part of catalytic step 2 spliceosome.

GO: NA

KEGG: NA

RNA

RNA id representative length rna type GC content exon number start site end site
TU398200 False 861 lncRNA 0.44 3 1738163 1741007
TU398201 True 863 lncRNA 0.44 3 1738163 1741007

Neighbor

gene id symbol gene type direction distance location
spag1a spag1,spag1a,LOC108438857,LOC107748364 coding upstream 36432 1683334 ~ 1701731 (+)
adck5 adck5 coding upstream 108167 1610614 ~ 1629996 (+)
lix1l lix1l,LOC107693252 coding upstream 129309 1596847 ~ 1608854 (+)
prcc prcc coding upstream 151701 1578998 ~ 1586462 (+)
mrpl24 mrpl24,LOC107559719,LOC107693309,LOC107669969 coding upstream 160007 1574337 ~ 1578156 (+)
grhl2b grhl2,grhl2b,LOC107748368,LOC107672862,LOC107550099,LOC107552317,LOC107738316,LOC107698657 coding downstream 63663 1804670 ~ 1842048 (+)
psmg2 psmg2 coding downstream 142438 1883445 ~ 1891699 (+)
seh1l seh1l,LOC107668717,LOC107746927 coding downstream 179928 1920935 ~ 1932700 (+)
rnmt rnmt,LOC107746930 coding downstream 250807 1991814 ~ 2003334 (+)
mc5ra mc5ra,LOC108257298,LOC108438868,LOC103022384,LOC107746932,LOC107552309 coding downstream 285400 2026407 ~ 2039047 (+)
G336275 NA non-coding upstream 149869 1586247 ~ 1588294 (+)
G336406 NA non-coding upstream 157863 1579795 ~ 1580300 (+)
G336267 NA non-coding upstream 186963 1549855 ~ 1551200 (+)
G336391 NA non-coding upstream 188933 1548991 ~ 1549230 (+)
G336283 NA non-coding upstream 189271 1548665 ~ 1548892 (+)
G336261 NA non-coding downstream 15178 1756185 ~ 1757404 (+)
G336481 NA non-coding downstream 80125 1821132 ~ 1842536 (+)
G336482 NA non-coding downstream 101582 1842589 ~ 1842970 (+)
G336849 fam210a,LOC107675659,LOC107754921,LOC107566562,LOC107668710 non-coding downstream 224969 1965976 ~ 1984496 (+)
LOC117595895 NA non-coding downstream 460773 2201780 ~ 2203741 (+)
polr2k NA other upstream 57811 1675040 ~ 1680352 (+)
G336433 parp10 other upstream 78704 1657317 ~ 1659459 (+)
G336334 NA other upstream 402589 1269809 ~ 1335574 (+)
G336350 cdk12 other upstream 410656 1325816 ~ 1327507 (+)
mllt11 mllt11 other upstream 602039 1132955 ~ 1136124 (+)
G336822 ldlrad4 other downstream 135267 1876274 ~ 1945866 (+)
LOC117595892 LOC108257284,LOC108257282,LOC108257281,LOC108257289,LOC108257310,LOC108272567,LOC108261104,LOC108280065,LOC108272472,LOC108261175,LOC108279530,LOC100526730,LOC108257326,LOC108257286,LOC108261265 other downstream 444885 2185892 ~ 2351749 (+)
LOC113546301 LOC108257282,LOC108257281,LOC108257284,LOC108257326,LOC108257289,LOC108257286,LOC108257310 other downstream 561138 2302145 ~ 2340261 (+)
LOC113546300 LOC108280069,LOC108261210,LOC108257281,LOC108257282,LOC108257284,LOC108257326,LOC108257286,LOC108257289 other downstream 617109 2358116 ~ 2392537 (+)
rsad1 rsad1 other downstream 2566915 4307922 ~ 4325036 (+)

Expression


Co-expression Network