rbm8a (rbm8a,LOC107671476)


Basic Information

Item Value
gene id rbm8a
gene name rbm8a,LOC107671476
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047616.1
NCBI id CM018562.1
chromosome length 21037487
location 2014611 ~ 2019052 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026923877.2
CATTTTATTCGGTTGCTACGCTAAACCGGAAGTGCTTATTGCGCATGCGCTAGTCTTCTCACACGGACAGGCATCATGGCGGACGTGCTAGATCTTCACGAAGCGGGAGGCGAGGATTTTCCTATGGACGAAGATGGCGACGAAAGCATTCACAAGCTGAAAGAAAAAGCCAAGAAGAGGAAGGGACGTGGATTTGGATCTGATGAAGGTGCGAGGTCTCGGGTTAGAGAAGATTACGACACAGTGGAGCAGGACGGCGATGAGCCTGGACCACAGAGATcTGTCGAGGGCTGGATCCTGTTTGTGACCGGCGTTCACGAAGAGGCGACGGAAGAAGACATCCACGACAAATTTGCAGAGTTTGGCGAGATCAAAAATCTGCACCTCAATTTGGACAGAAGGACGGGTTACCTCAAGGGTTACGCGTTGGTAGAATATGAAACGTATAAAGAAGCGCAGGCTGCCATGGAGGGGCTGAACGGCCAGGAGCTCATGGGTCAAGCCATCAGCGTGGACTGGGGCTTCGTCCGAGGGCCTCCCAAGAGCAAGAGGAGGGGAGGGAGGAGACGGAGCAGAAGTCCAGACAGAAGACGGCGCtgaattgaaataaacatttctccCAGTTGGCGTTCCTTTATCTTTGTCACGTGAAGGCTGTGTGGCCGCGTGACTTTCTGTACTGGGTTGTTTTAGGTTTTACTgcttttctgtgtttctgtatcTCACAAGTTGCCCAGCTGCTGCCTGTGGAGTTTTctctgtacactctcagaacaaaaaaaatctgtgatagTGTTTTAGGGccagtgttaaaataaaataaataaaaaatacatggtTGCGAGAATGAAAGTGCAgtaaaatgatattattatgagaaaaatgTTGTATTATTTCAAGAAAAATGTCATAATACAATGACAAAATTTCATTGCTCCAATGTTCACCATTCTGTTGTAGcattatgactttttttctccacatggTAAGACTTTCTTCTTGagatattgtgttttatttttttaacagtggcCCTGAAACGCTGTCGCAAAAATCTGACATGTCAGTTCTTATCTTCGTACAGCGTTTAAGGAGAGAACTGAAGAAATTTAAGGCTTCTAGACTGTAACACGTGAAGACGATCACAGCAGtgtttgtaatattaaaatactttttctGTATAGTGTCAGTTGCTTGGTTTTACGTAAACATTTTGTACAAAAATTGAAGAAACTGATCCTTTAAAACTAATTTGGGTTACGCCGTAATATATGAAGCTGTACCTGAATTAATTTTAAAGCTACTGGTTTGTTCACTTCCAATAAATTTGTTTGGGGATGTGA

Function

symbol description
rbm8a Predicted to enable mRNA binding activity. Predicted to be involved in RNA splicing and regulation of alternative mRNA splicing, via spliceosome. Predicted to act upstream of or within mRNA metabolic process; mRNA transport; and regulation of translation. Predicted to be located in nucleus. Predicted to be part of U2-type catalytic step 1 spliceosome and exon-exon junction complex. Human ortholog(s) of this gene implicated in thrombocytopenia-absent radius syndrome. Orthologous to human RBM8A (RNA binding motif protein 8A).

NR:

description
RNA-binding protein 8A isoform X1

GO:

id name namespace
GO:0000381 regulation of alternative mRNA splicing, via spliceosome biological_process
GO:0006417 regulation of translation biological_process
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay biological_process
GO:0051028 mRNA transport biological_process
GO:0016607 nuclear speck cellular_component
GO:0005737 cytoplasm cellular_component
GO:0000166 nucleotide binding molecular_function
GO:0003723 RNA binding molecular_function

KEGG:

id description
K12876 RBM8A, Y14; RNA-binding protein 8A

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026923877.2 True 1343 mRNA 0.43 6 2014611 2019052

Neighbor

gene id symbol gene type direction distance location
paqr6 paqr6,LOC106605285 coding upstream 71321 1925582 ~ 1943290 (+)
syngap1b LOC108256109,LOC108433893,LOC107592452,LOC107726670,LOC101464846,LOC102194363,LOC103477581 coding upstream 116221 1796355 ~ 1898390 (+)
phf1 phf1,LOC108256128,LOC108433894,LOC107592148,LOC107592451,LOC107665654,LOC107726675 coding upstream 226327 1770828 ~ 1788284 (+)
dnase2 LOC108256294 coding upstream 280480 1724131 ~ 1734131 (+)
LOC113532957 LOC108256297 coding upstream 301219 1708432 ~ 1713392 (+)
otud7b otud7b,LOC107726676 coding downstream 2363 2021415 ~ 2055739 (+)
mtmr11 mtmr11,LOC107726680,LOC107592143,LOC107671475 coding downstream 40488 2059540 ~ 2091481 (+)
sv2a sv2a,LOC107688240,LOC107592458 coding downstream 85736 2104788 ~ 2139998 (+)
nr2f5 nr2f5,LOC108256176,LOC103038004,LOC107592459,LOC107726692,LOC105005680,LOC107592141,LOC105891836,LOC107671473,LOC100380645 coding downstream 149666 2168718 ~ 2183436 (+)
rpz LOC108256188,LOC108256189,LOC108433880,LOC103039167,LOC105891956,LOC103372036,LOC106605297 coding downstream 201754 2220806 ~ 2232699 (+)
G325076 apoa2 non-coding upstream 2630 1993256 ~ 2011981 (+)
LOC117595767 NA non-coding upstream 13607 2000137 ~ 2001004 (+)
G324947 NA non-coding upstream 82285 1927080 ~ 1932326 (+)
G324889 NA non-coding upstream 275356 1735619 ~ 1739255 (+)
G324842 NA non-coding upstream 346768 1667560 ~ 1667843 (+)
G325089 NA non-coding downstream 1132 2020184 ~ 2020388 (+)
G325247 NA non-coding downstream 315827 2334879 ~ 2335106 (+)
G325268 NA non-coding downstream 377621 2396673 ~ 2396887 (+)
G325271 NA non-coding downstream 381418 2400470 ~ 2400684 (+)
G325462 NA non-coding downstream 624989 2644041 ~ 2647583 (+)
smg5 smg5,LOC107726659,LOC107671430,LOC107728478 other upstream 94901 1899626 ~ 1919710 (+)
G324258 LOC108256270,LOC108256266,LOC108256277,LOC108256272,LOC108256164,LOC108256268 other upstream 850997 1118268 ~ 1163614 (+)
cpne4a cpne4a,LOC108256561,LOC108412597,LOC107600547,LOC107713817,LOC107668284,LOC107666882 other upstream 1004388 956584 ~ 1010223 (+)
psmc4 psmc4,LOC107719110 other upstream 1208083 774289 ~ 806528 (+)
G324206 NA other upstream 1266136 745673 ~ 748475 (+)
bola1 bola1,LOC107592543 other downstream 123140 2142192 ~ 2144525 (+)
LOC113533074 LOC108256184 other downstream 185794 2204846 ~ 2215410 (+)
G325435 NA other downstream 546648 2565700 ~ 2569739 (+)
hamp NA other downstream 1992328 4011380 ~ 4013538 (+)
hmgn2 NA other downstream 2372468 4391520 ~ 4394784 (+)

Expression


Co-expression Network