LOC117599467 (cpsf6,LOC108279496,LOC107729149)


Basic Information

Item Value
gene id LOC117599467
gene name cpsf6,LOC108279496,LOC107729149
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047612.1
NCBI id CM018558.1
chromosome length 23372418
location 702044 ~ 716571 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_034313111.1
TCCGCACGTTCGCGCGCCGCGTTCGTCACTTCCGCCCGCTGagggaggaggagcaggaggaggacaGAGGAGCGGAAAATGGCGGACGGTGTTGATCACATCGACATTTACGCAGATGTAGAAGAGGAGTTTAATCAGgaaacAGATTATCCCGTTCACGAGCAGATCGACCtgtatgatgatgtcatctccCCCTCGGCCAATAACGGAGATGCTCCTGAGGACAGAGATTACCTGGACAACCTGCCTGCACCTGGAGGCACCGAGGGGAACAAAGGAGCTCCGCCCAACGTCGTTTACACCTACACGGGCAAACGCATCGCTCTGTACATCGGCAACCTCACCTggTGGACCACAGACGAGGATCTGACCGAAGCCATTCGCTCCATCGGCATCAACGACGTGCTGGAGATCAAGTTCTTTGAGAACCGAGCGAACGGCCAGTCGAAAGGgtttgCGTTGGTGTGTGTGGGATCAGAAGCCTCCTCCAGGAAGTTGTTGGATTTGCTGTCGAAGCGAGAGCTGCACGGCCAAAACCCGATCGTCACCCCGTGCAACAAACAGTCGCTCAGTCAGTTCGAGCTGCAGTCACGCAAGAgCACCCAGTCGGGGCAGATGTCAGGGGAAGGGAAGGCTGGTCCCCCCGGTGTGGGTCCCCGCGGTGGTTTTCCCTTAGGGAGGGGTCGTGGGCGTTTCCCAGGTCCCGCTGGGCCCGGAGGAGATCGCTTTCCTGGACCGGTTGGACCTGGAGCGCCGCCTCCACACTTCCCTGGTGGTATACAGGGTCTCCCCCGCCCTCCCCCAGGCCCGCCCGGCCCGCCCGGTCCTCCTGGACCCCCACCTCCTGGTCAAGgtttagccccgcccctttcagGCCCCCCGAACAGAGGGGACCGCCCACCTCCTCCTGTCCTGTTTCCTGGTCAGTTTGGCCAACCTCCGCTCGGCCCGTTGCCCCCTGGCCCCCCTCCTCCAGGTTACGGCCCGCCCCCTGGTCCACCCCCACCTCAGCAGGGTCCCCCCCCGCCCGGCCCGTTCCCGCCGCGTCCCCCCGGTCCTATCGGCCCTCCCCTGGCCTTAGCTCCGCCCCCGCACATGCGTGGCCCTCCTCCTGGAGGCCCACCTCCTGCCCCCCACGTCAACCCTGCCTTCTTCCCGCCGCCCGGAAACAACAACATGGCAGCGCCGGATAGAGCCCCGCCCCCCAACGACCCGTACGGACGGCCCCCTCCCTATGACCGGGATTACGGCCCGGGCAGGGAGATGGATGCAGCTCGAGCCCCTCTGAGTGAGGCTGAATTTGAGGAGATAATGAACAGAAACAGAGCTATCTCCAGCAGCGCTATATCCAGAGCTGTGTCAGACGCGAGcgcagGAGATTACGGCAGTGCTATCGAGACACTGGTGACTGCAATCTCATTAATAAAGCAGTCGAAGGTTTCGGCTGACGATCGCTGTAAAGTGTTGATCAGCTCTCTGCAGGACTGCCTGCACGGCATCGAGTCCAAATCCTACGGCTCCGCCTCCAGACGAGAGCGATCGCGGGATCGGGACCACAGCCGCTCCCGCGAGAAGAGTCGCCGTCACAAATCTCGCAGCCGCGACCGCCACGAGGACTACTACCGCGAGCGAAGCCGCGAAGACCGCCATCGCGAGAGGGACCGTGACCGTGAGAGAGACCGCGACCGAGAGAGGGAGTACCGCCATCGTTAGGAcgcaaagCTGAATGGAAGAaaacgaggaggaggaggaggaagaagaagcgACCTGAGCACTTCACACTCATCCATCAGCGCTCTTCATCCCTCCGTCACCAAGACGACTGGACTCGTCCACGCAGCGCTCCAGTACAGATCTGTTTCAAacgtatatatattatatatacttgCTCACTCTTAATTCCCAGCAgcgtatttttttattttttgacattttatttgatcTGCGTAattggaagaagaagaagaaaagtaagttcaGCTTTTTCGGCGTTAAAGTAACTTTTGCCTGCTCGGTCCTCCACCAAAAACGTAACGTTTTGACGCCTCCTGTAATGTGTAAATCGTTAGACGTTGTTTTTATAGGGAACTTTTGTTTTCATCGCCCTCTTCCCCTCATTTTTCCCCGCCGTTTGTCTGCATCATTGTCTGTGAATGTCTCTGCCTTGATTTATTAAATAGACTGTGTTGTAATAAAGTGTTTCTGGGGTTGCCACTTGTTTATACTCTGTATTTCTTGAAGCGTTTTTCATGTTGTACATGTTTACTCATTGCACTGAACAGCTGAAAACGTGATCTCTGTTTAGGCATGTGCTGATGGATCGTACTCATctctgttgttattttttaaatatttagatttaaaacgGTAAATTACTATTTGAGTGCTAAATTTTTTCCTCTTCGTCCAAATTTGTACATCTTTAAGCTTCTTTTTCTGAGCTTTGCGTACACAGACGACTCGTCAGTGCAGCGTGTGAGTTCGCTCATAATcgtaaataaaaatctacattCCGAATATAATAATTGCGTAACGGattatcggcacatgcctaAATTTGATCTGAACCATTTAcggaaaaaagaaattaaattttttagatGTCTTACCTCA

Function

symbol description
cpsf6 Predicted to enable mRNA binding activity. Predicted to be involved in mRNA alternative polyadenylation; positive regulation of RNA export from nucleus; and protein-containing complex assembly. Predicted to act upstream of or within mRNA processing. Located in paraspeckles. Is expressed in several structures, including blastomere; central nervous system; digestive system; eye; and yolk. Orthologous to human CPSF6 (cleavage and polyadenylation specific factor 6).

GO: NA

KEGG:

id description
K14398 CPSF6_7; cleavage and polyadenylation specificity factor subunit 6/7

RNA

RNA id representative length rna type GC content exon number start site end site
XM_034313111.1 True 2613 mRNA 0.54 11 702044 716571

Neighbor

gene id symbol gene type direction distance location
LOC117599421 NA coding upstream 365867 318294 ~ 336177 (+)
LOC117599420 LOC108279481,LOC108262260,LOC108279495 coding upstream 393403 300083 ~ 308641 (+)
LOC117599419 yeats4,LOC107555875,LOC107590554,LOC106609801 coding upstream 410046 289794 ~ 291998 (+)
ccdc107 ccdc107 coding upstream 514455 168604 ~ 187589 (+)
LOC117599423 LOC108261705,LOC108261423,LOC108261555,LOC108261610 coding downstream 62384 778955 ~ 780859 (+)
LOC117599515 NA coding downstream 64674 781245 ~ 782682 (+)
LOC117599501 NA coding downstream 483500 1200071 ~ 1203360 (+)
LOC117599433 LOC108279477,LOC108261384,LOC108261687,LOC108261932 coding downstream 814853 1531424 ~ 1532846 (+)
LOC117599437 NA coding downstream 1908831 2625402 ~ 2628545 (+)
G275117 NA non-coding upstream 4266 697477 ~ 697778 (+)
G275094 LOC108262260 non-coding upstream 75553 610945 ~ 626491 (+)
G275080 NA non-coding upstream 176947 523888 ~ 525097 (+)
G275077 NA non-coding upstream 181541 520071 ~ 520503 (+)
G275075 NA non-coding upstream 185050 514984 ~ 516994 (+)
G275123 NA non-coding downstream 31441 748012 ~ 748376 (+)
G275184 NA non-coding downstream 38676 755247 ~ 755943 (+)
G275185 NA non-coding downstream 39443 756014 ~ 825497 (+)
G275186 LOC108279477 non-coding downstream 40848 757419 ~ 828148 (+)
G275187 NA non-coding downstream 41904 758475 ~ 759158 (+)
kcnc2 kcnc2 other upstream 462500 202190 ~ 239544 (+)
G274944 NA other upstream 556002 143898 ~ 146042 (+)
G274937 LOC107747660 other upstream 563834 136566 ~ 138210 (+)
G275122 NA other downstream 16358 732929 ~ 750994 (+)
LOC117599424 LOC108279477,LOC108261384,LOC108261687,LOC108261705,LOC108261555,LOC108261423,LOC108444120,LOC108444126,LOC108444129,LOC108412318 other downstream 97598 814169 ~ 821166 (+)
G275221 LOC108261384,LOC108261423,LOC108279477,LOC108261705,LOC108261555,LOC108261687,LOC108412318,LOC108415949 other downstream 256765 973336 ~ 1019014 (+)
LOC113543470 LOC108261384,LOC108279477,LOC108261423,LOC108261705,LOC108261687,LOC108261555,LOC108261611,LOC108262265,LOC108444126,LOC108412318 other downstream 301802 1018373 ~ 1226905 (+)
LOC117599483 NA other downstream 351512 1068083 ~ 1068578 (+)

Expression


Co-expression Network