snrnp40 (snrnp40,LOC107591625,LOC107593559,LOC107696518)


Basic Information

Item Value
gene id snrnp40
gene name snrnp40,LOC107591625,LOC107593559,LOC107696518
gene type 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 12703037 ~ 12709593 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026929670.2
TTCTCCGAGCCTGAGCGAGAGCTTAATGGCGGATAGTGGATGGTGGAGTGCTTAGTTCATACAAACTCCTGCCACGAGAGAAATTGTGATAAAtcattctttttctgtctttttcctgAACTGCAGCCGCTGTAAACAATGATTGAAGCCATGAAGCGCGGCGCGGACATGGCGCTCGTTCCCGCGGGGGTGAAGAGGCCGAGGACCGAGCTGGTGGCCGCGGCTCAGTCCCAACAACTCGCTACCATGGGTCCTCCACGCAGCTCCAGTTTGCAGGCTCCTATAATGTTGTTGTCTGGCCATGAGGGAGAAGTCTACTGCTGCAAGTTTCACCCGAACGGCTCCATGCTCGCTTCTGCAGGATACGACCGCCTCATCTTGTTATGGAACGTGTATGGAGAATGTGAAAACTTTGCCACACTAAAGGGCCACACCGGAGCTGTAATGGAGCTTCATTATAATACAGACGGCAGTCTGCTCTTTTCAGCCAGTACGGATAAGACAGTTTGTGTGTGGGACAGCGAGACGGGTGAACGTGTGAAGCGACTGAAAGGCCACACGTCCTTTGTAAACTCTTGTTTTCCTGCTCGCCGTGGTCCACAGCTGGCCTGCACTGGCAGTGACGATGGAACTGTGAAGCTGTGGGACATCAGGAAGAAGGCGTCCGTTCATACGTTCCAAAACACATACCAGGTTCTAAGTGCTACCTTTAACGACACCAGTGACCAGATCATCTCAGGAGGCATCGACAATGACATCAAGGTATGGGACCTGAGACAGAATAAGCTGATTTACAGCATGCAGGGACATGGAGACTCAGTGACGGGACTCAGTCTCAGCTCAGAGGGATCCTACTTACTGTCCAACTCCATGGACAACAGTGTGCGCGTGTGGGATATCCGTCCATTTGCCCCTAAAGAGAGATGTGTGAAGATTTTCCAGGGAAATGTCCACAATTTTGAAAAGAATCTTCTGCGCTGCTCTTGGTCACCAGATGGCAGTAAGATAGCGGCAGGCTCCGCTGACAGGTTTGTGTATATCTGGGACACGACCTCTCGTAGAATCCTTTATAAGCTTCCTGGTCATGCGGGATCAGTCAACGAGGTGGCCTTCCATCCAGAGGAACCCGTTGTGCTGTCTGGATCCAGTGATAAGCGCCTCTACATGGGGGAaattcagtagtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtctgagtgccCGAGAGAGCATGGCGGTAGGGGTGGGGATTAATGAttttgagaaacagaaaaattcaATTTTGAGACAGTCCTTGGCCGTGGATAGAATGTTCAGTTCCTTTTCTATGCTTTTAATAAACTCATTTTTGGATAAATGAA

Function

symbol description
snrnp40 Predicted to be located in viral nucleocapsid. Orthologous to human SNRNP40 (small nuclear ribonucleoprotein U5 subunit 40).

NR:

description
U5 small nuclear ribonucleoprotein 40 kDa protein-like

GO:

id name namespace
GO:0019013 viral nucleocapsid cellular_component

KEGG:

id description
K12857 SNRNP40, PRP8BP; Prp8 binding protein

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026929670.2 True 1381 mRNA 0.50 10 12703037 12709593

Neighbor

gene id symbol gene type direction distance location
arpp21 arpp21 coding upstream 37968 12650217 ~ 12665069 (+)
pdcd6ip pdcd6ip,LOC107591619,LOC107742851,LOC107696546,LOC107706184 coding upstream 55777 12634750 ~ 12647260 (+)
ubp1 ubp1,LOC107706185,LOC107669383,LOC107696552,LOC107742855 coding upstream 71085 12609500 ~ 12631952 (+)
clasp2 clasp2 coding upstream 96679 12556877 ~ 12606358 (+)
fbxl2 fbxl2,LOC107696556,LOC107742856,LOC107706183,LOC107591618,LOC107669511,LOC107593554 coding upstream 148684 12531305 ~ 12554353 (+)
nkain1 nkain1,LOC107593567,LOC107670117,LOC107591671,LOC107696573 coding downstream 5114 12714707 ~ 12723544 (+)
pum1 pum1 coding downstream 17523 12727116 ~ 12743818 (+)
sdc3 sdc3,LOC107696563,LOC106570634 coding downstream 41936 12751529 ~ 12784427 (+)
LOC113536229 LOC108256952 coding downstream 83602 12793195 ~ 12797790 (+)
matn1 matn1,LOC107696557,LOC107742840,LOC107697056,LOC107706195 coding downstream 88819 12798412 ~ 12804158 (+)
LOC117595825 NA non-coding upstream 15824 12684133 ~ 12687213 (+)
G342629 NA non-coding upstream 23707 12679115 ~ 12679330 (+)
G342628 NA non-coding upstream 25840 12676848 ~ 12677197 (+)
G342627 NA non-coding upstream 27686 12675141 ~ 12675351 (+)
G342621 NA non-coding upstream 54320 12648495 ~ 12648717 (+)
G342735 NA non-coding downstream 437452 13147045 ~ 13147846 (+)
G342836 NA non-coding downstream 591946 13301539 ~ 13301803 (+)
G343522 NA non-coding downstream 1053491 13763084 ~ 13766601 (+)
G343620 NA non-coding downstream 1259641 13969234 ~ 13994319 (+)
G343671 NA non-coding downstream 1366864 14076457 ~ 14078541 (+)
fabp3 fabp3,LOC106570598,LOC108426441,LOC105892250,LOC107742844,LOC107669374 other upstream 7525 12692007 ~ 12695512 (+)
sostdc1b LOC108257373 other upstream 887764 11810109 ~ 11815273 (+)
dlgap3 dlgap3 other upstream 1229714 11314530 ~ 11473323 (+)
smim12 smim12,LOC107726140,LOC107664707,LOC107698988,LOC107563281 other upstream 1408681 11292291 ~ 11294356 (+)
G341451 col8a2,LOC107565043,LOC107710560 other upstream 2221067 10474483 ~ 10481970 (+)
LOC113536228 nobox other downstream 76244 12785837 ~ 12792473 (+)
si:ch211-199g17.2 NA other downstream 195030 12904623 ~ 12954725 (+)
G342718 klhl43,LOC108256975,LOC108426671,LOC107591641,LOC107742826,LOC107696549,LOC107589442,LOC107706211 other downstream 367577 13077170 ~ 13081229 (+)
slc30a8 slc30a8,slc30a2,rprd1a,LOC108256818,LOC107754284,LOC107696534,LOC107696508,LOC106570487,LOC107654669,LOC107592974 other downstream 1496128 14205721 ~ 14231844 (+)
med30 med30,LOC107706236,LOC107754270,LOC107654723 other downstream 1523924 14233517 ~ 14250931 (+)

Expression


Co-expression Network