LOC113524197 (npm1a,LOC108277343,LOC108444574,LOC107676031)


Basic Information

Item Value
gene id LOC113524197
gene name npm1a,LOC108277343,LOC108444574,LOC107676031
gene type non-coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047611.1
NCBI id CM018557.1
chromosome length 24879021
location 1428150 ~ 1510087 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>TU309969
aactctTTATTCCTGTGCAGTAAAATTTGTTTCATTGCAAAAGCATGACAGACACGTTTCATTTATTCCAACTCGGAGGGTAGAGAGCGGCTTTTCTCAGACTTACACATCCAACCTGTGctattttacagtatattcacaAGTCCAGCTTCATATGCTTCAAACTCACACGACACAGAAAATGTTCAGACACAACGTCCCTTAGCTGCACTCATGATGAAATTTACAGATCAGGAGAAGCTCACGCAGCTTCTCAGAGGAATCAGAAACCTGCAAGAGTTTCTGAACATGACAaactcaaaattaaaaaaaagaaagggaaaaagaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaagacaacgaCATAATTTAACTAAGTAAAATGTTGGATTAGTTCTTCACTGTCTGTCTCCACTGCCACAGCTCTCCAATCACCTTTGCATCAGTCACTTTGAAGCCGTTCTTCACATAGTTTTCGAACTTGGGCTGAAGTTTGGGCAGCATCACTCCcttctctaCGCTAGCCATCATCTTGGCCTTGATCTCCGTGATGCTGAGCGGCGCTTGTGGAGTTTTGGGCGTCTTCGGGCTTTTGGGGGTCTGTGGTTTCTTCTCGTTCTTCTTGCCAGCATCTGGtgtcttgttCTGTTTGGGTGCTGGTGTGTTGGATTTGCCGTTCTGAGCAGGAGTCTGGGGTTTGGCTGCCGGCTTCTTGGCCTTCACTGGCGTCTCCTCCTcgctctcttcctcctcctcctcatcatcctcctcatccTCTTCATCATCGTCATCTTCCTCATCgtcatcttcatcctcctcttccatCTTCATCTTTTTTGATGGCTTTGCAGCCGCTGGAGCTCCTCTCTTCACAGCTGtcctcatctcctcctcctcttcctcctcatcttcatcaAAAGACTGATCTCCGCTCATCATGATGAGGTGCTGGCCGCTGATGTGAACTGGACCGGAACCGGTACGCAGACGGAAAACTACAGGAGGACTGATCTCGAACCCACCCAGACACACGCTCGGCATGCTGGACGGCTTCAGCGTGGCCAGCACGGCTTTGACCTTCTGACCCTCCGAGTCCTGGCCCTCGACTTCCACGACGTTCAGCTCGTCTTTGGTGGCCGGATCGACACACGCCATCCTGACGGACAGCTGATGCTCGAAGTCGTCATCCTCGGGGTTAAAGGTCACTTCCTTTCCCTCTTTCAGCTCGCAGCCGTAAAGGAAGGTCTGAGGGCCCATCTGCTCGGCGTCCATGTCTGCtccctgtgtgagtgtgttaagaGCCGGTGTAGTGGAGCTTCTAC
>TU309972
aactctTTATTCCTGTGCAGTAAAATTTGTTTCATTGCAAAAGCATGACAGACACGTTTCATTTATTCCAACTCGGAGGGTAGAGAGCGGCTTTTCTCAGACTTACACATCCAACCTGTGctattttacagtatattcacaAGTCCAGCTTCATATGCTTCAAACTCACACGACACAGAAAATGTTCAGACACAACGTCCCTTAGCTGCACTCATGATGAAATTTACAGATCAGGAGAAGCTCACGCAGCTTCTCAGAGGAATCAGAAACCTGCAAGAGTTTCTGAACATGACAaactcaaaattaaaaaaaagaaagggaaaaagaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaagacaacgaCATAATTTAACTAAGTAAAATGTTGGATTAGTTCTTCACTGTCTGTCTCCACTGCCACAGCTCTCCAATCACCTTTGCATCAGTCACTTTGAAGCCGTTCTTCACATAGTTTTCGAACTTGGGCTGAAGTTTGGGCAGCATCACTCCcttctctaCGCTAGCCATCATCTTGGCCTTGATCTCCGTGATGCTGAGCGGCGCTTGTGGAGTTTTGGGCGTCTTCGGGCTTTTGGGGGTCTGTGGTTTCTTCTCGTTCTTCTTGCCAGCATCTGGtgtcttgttCTGTTTGGGTGCTGGTGTGTTGGATTTGCCGTTCTGAGCAGGAGTCTGGGGTTTGGCTGCCGGCTTCTTGGCCTTCACTGGCGTCTCCTCCTcgctctcttcctcctcctcctcatcatcctcctcatccTCTTCATCATCGTCATCTTCCTCATCgtcatcttcatcctcctcttccatCTTCATCTTTTTTGATGGCTTTGCAGCCGCTGGAGCTCCTCTCTTCACAGCTGtcctcatctcctcctcctcttcctcctcatcttcatcaAAAGACTGATCTCCGCTCATCATGATGAGGTGCTGGCCGCTGATGTGAACTGGACCGGAACCGGTACGCAGACGGAAAACTACAGGAGGACTGATCTCGAACCCACCCAGACACACGCTCGGCATGCTGGACGGCTTCAGCGTGGCCAGCACGGCTTTGACCTTCTGACCCTCCGAGTCCTGGCCCTCGACTTCCACGACGTTCAGCTCGTCTTTGGTGGCCGGATCGACACACGCCATCCTGACGGACAGCTGATGCTCGAAGTCGTCATCCTCGGGGTTAAAGGTCACTTCCTTTCCCTCTTTCAGCTCGCAGCCTGTGAAATAATTCAACACAAACATGTGTAGACCTGCAACTGATCAGCATgaagtgagtaaaaaaaaaaaaacgagttaATACACAAACACTGTGCAAAGAGGAAAACTGAGAGGCGCGTGATGAGGGGTGTGAGCTGCGCGAGCTGCGTCTCCACGTGCGTGCGGTGTGCGTGCGTGCACGTGCGCCATCTCGCGAAAAAAAGCATAACCGG
>TU309973
aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaagaaaaaaaaaaaaca
>TU309975
aaaaaaaaaaaaaaaaaaaaaaaagagaaaaaaaaaaaaaaaaaaaaaagacaacgaCATAATTTAACTAAGTAAAATGTTGGATTAGTTCTTCACTGTCTGTCTCCACTGCCACAGCTCTCCAATCACCTTTGCATCAGTCACTTTGAAGCCGTTCTTCACATAGTTTTCGAACTTGGGCTGAAGTTTGGGCAGCATCACTCCcttctctaCGCTAGCCATCATCTTGGCCTTGATCTCCGTGATGCTGAGCGGCGCTTGTGGAGTTTTGGGCGTCTTCGGGCTTTTGGGGGTCTGTGGTTTCTTCTCGTTCTTCTTGCCAGCATCTGGtgtcttgttCTGTTTGGGTGCTGGTGTGTTGGATTTGCCGTTCTGAGCAGGAGTCTGGGGTTTGGCTGCCGGCTTCTTGGCCTTCACTGGCGTCTCCTCCTcgctctcttcctcctcctcctcatcatcctcctcatccTCTTCATCATCGTCATCTTCCTCATCgtcatcttcatcctcctcttccatCTTCATCTTTTTTGATGGCTTTGCAGCCGCTGGAGCTCCTCTCTTCACAGCTGtcctcatctcctcctcctcttcctcctcatcttcatcaAAAGACTGATCTCCGCTCATCATGATGAGGTGCTGGCCGCTGATGTGAACTGGACCGGAACCGGTACGCAGACGGAAAACTACAGGAGGACTGATCTCGAACCCACCCAGACACACGCTCGGCATGCTGGACGGCTTCAGCGTGGCCAGCACGGCTTTGACCTTCTGACCCTCCGAGTCCTGGCCCTCGACTTCCACGACGTTCAGCTCGTCTTTGGTGGCCGGATCGACACACGCCATCCTGACGGACAGCTGATGCTCGAAGTCGTCATCCTCGGGGTTAAAGGTCACTTCCTTTCCCTCTTTCAGCTCGCAGCCTGTGAAATAATTCAACACAAACATGTGTAGACCTGCAACTGATCAGCATgaaatttgtactggagctacgaggctaatgtagtGAATGGAAGTTTATAGCCTCCAGTTAAGCATGGACGTATTTGGAGTGAAGGGGA
>XR_003402517.2
TGCACGCACCATCCTGACGGACAGCTGATGCTCGAAGTCGTCATCCTCGGGGTTAAAGGTCACTTCCTTTCCCTCTTTCAGCTCGCAGCCTGTGAAATAATTCAACACAAACATGTGTAGACCTGCAACTGATCAGCATgaaATGAGATCTGACAGCGCTGCTGGACGAGACGATCCACGCCCGGGGGAGGAGACAGATATAAACGTGTGAACAGGAAATTGCATCATCCggatttcctgaagatcatgagaagaagaaaaAGCCTGATTGAGAGGGCTGGgatgagcaacaggacagtccgtatgattacagcagcagctcttcaGGTTGAGGATCTCTGTGAGCATGAAGCAGTGGAAGATCAGCGGTTAAGGCTTGGAAGGTTGTGACTTTAAGTCCTGGTTCTGTCACGCTGTCACCGCTTGACCCTTAACCCTCGACTCAGCACAATTACAATTCCCTTCGGATAAAAGCGTTTGCcaaatgagaaaatggaaacGTCTCTTCAGCAAGAACTCTGTCTCAGGTTGTCAGACttcccttccttttttttttccagctccaTGATCTCCTCAGATGGCTAC

Function

symbol description
npm1a Predicted to enable RNA binding activity; chromatin binding activity; and histone binding activity. Acts upstream of or within hemopoiesis and regulation of apoptotic process. Located in nucleolus. Is expressed in several structures, including digestive system; fin bud; hematopoietic cell; nervous system; and neural tube. Human ortholog(s) of this gene implicated in acute myeloid leukemia. Orthologous to human NPM1 (nucleophosmin 1).

GO:

id name namespace
GO:0030097 hemopoiesis biological_process
GO:0005730 nucleolus cellular_component

KEGG: NA

RNA

RNA id representative length rna type GC content exon number start site end site
TU309969 False 1330 lncRNA 0.49 12 1465568 1471657
TU309972 True 1453 lncRNA 0.48 11 1465568 1470922
TU309973 False 64 lncRNA 0.03 3 1452099 1507489
TU309975 False 1064 lncRNA 0.50 12 1428150 1487270
XR_003402517.2 False 585 lncRNA 0.48 5 1470621 1510087

Neighbor

gene id symbol gene type direction distance location
LOC113524161 NA coding upstream 4685 1420371 ~ 1423465 (+)
cldn7b cldn7b,LOC108277307,LOC108444573 coding upstream 19316 1401549 ~ 1408834 (+)
fgf11b fgf11b,LOC103026543,LOC108443340,LOC107677987,LOC103363034 coding upstream 40750 1360710 ~ 1387400 (+)
pcolcea LOC108277346 coding upstream 299898 1119530 ~ 1128252 (+)
trnal-aag_10 NA coding upstream 328697 1099372 ~ 1099453 (+)
LOC113524165 LOC108277141 coding downstream 2477 1512564 ~ 1523146 (+)
LOC113524200 NA coding downstream 42181 1552268 ~ 1553689 (+)
fgf18b LOC108276546,LOC108437818,LOC103034963,LOC107742373,LOC107687415,LOC107552074 coding downstream 302512 1812599 ~ 1826322 (+)
avd LOC108277130 coding downstream 360572 1870659 ~ 1873142 (+)
pcdh1a LOC108276538,LOC108437809,LOC107678039,LOC107708655,LOC107720713,LOC107564544 coding downstream 472066 1982153 ~ 2053236 (+)
G261585 NA non-coding upstream 94164 1333782 ~ 1333986 (+)
G261544 NA non-coding upstream 164010 1263307 ~ 1264140 (+)
G261534 NA non-coding upstream 179469 1241824 ~ 1248681 (+)
G261536 NA non-coding upstream 181539 1245800 ~ 1246611 (+)
G261510 NA non-coding upstream 213654 1203000 ~ 1214496 (+)
G261634 LOC108276785 non-coding downstream 86675 1596762 ~ 1610711 (+)
G261638 LOC108276785 non-coding downstream 90384 1600471 ~ 1615601 (+)
G261642 LOC108276791,LOC108276664,LOC108276785,LOC108276794,LOC108276798,LOC108437803 non-coding downstream 117599 1627686 ~ 1678077 (+)
G261644 LOC108276798,LOC108276785,LOC108276794,LOC108276793,LOC108437803,LOC108416544 non-coding downstream 124524 1634611 ~ 1644162 (+)
G261643 LOC108276792,LOC108276799,LOC108276796,LOC108437803,LOC107688304,LOC105905981 non-coding downstream 172132 1682219 ~ 1704174 (+)
ponzr2 LOC108277330 other upstream 8661 1411986 ~ 1419489 (+)
G261503 NA other upstream 191018 1205991 ~ 1237132 (+)
vamp2 mpp1,vamp2,LOC106603197,LOC106563390,LOC106523110,LOC107386619,LOC107554313,LOC107742350 other upstream 315872 1101789 ~ 1112278 (+)
G261178 NA other upstream 700425 725827 ~ 727725 (+)
trim37 trim37,LOC107691657 other upstream 771941 603726 ~ 656209 (+)
rps25 rps25,LOC107583381,LOC107565279,LOC108433270,LOC107758587,LOC107679519 other downstream 1234309 2744396 ~ 2747317 (+)
pcp4a NA other downstream 1285404 2795491 ~ 2817263 (+)
nrip1b LOC108277259 other downstream 1606082 3116169 ~ 3141753 (+)
msi2a msi2b,LOC108276910,LOC108435815,LOC108425902 other downstream 1743229 3253316 ~ 3576137 (+)
triap1 triap1,LOC106568193 other downstream 3567766 5077853 ~ 5080643 (+)

Expression


Co-expression Network