LOC113546064 (hps4)


Basic Information

Item Value
gene id LOC113546064
gene name hps4
gene type misc
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047602.1
NCBI id CM018548.1
chromosome length 30442583
location 29903513 ~ 29929070 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>TU166919
tctcacaTGACACTTACTTGTGACCAACATTCCAGACTTTTAGAAAGATTTTCCTctaaagtgagaaagagagagaaagaacgaaGGAAATGTCAcattaaggggaaaaaagctttgtttttatgttaaaatcGGGATTTTTTAACGCTGAAGTGACAGAAACACTGACCTGAGTTCGGATTAACAGggatggagggaggacGGAGGATGGAGCGTCTCTGATAAAGGATAAAGGTTTAATCTGCACCGTGTTTCTGAATCACTCAGTAACAAGCAACATGGCTGAGACACGACACACCGACAGCTCACGctgCAGCTGTTTCTTCCTGTACGATCGCTCTAAAGTTCAGGAGGAAGGCGATCTGACCCGCGCCGGAATCTGCTACTACTATCCTGAacacactcCGTTGGATCTGCAGGAGCTGGTCTGTGGTCAGCTGGCTGGTGTGAGTCGCTGTGTGTCAGAGATTTCAGCGTCTCCCGTCCGGCTGCTCCGTCTGCGCAGGAGCAAATACGCCATCCGCATGAGAGACGACTTCCtctgggctctgAGCTGTGTAAATGATCTCCCggatgtcagtgtgtgattttctgGATCAGATGATTGATCTGTTCTGTTTCTATAACGGTTCGGTGCGTCGCAGCTATCAGCTCCACACTCAGGAGGAACTGGCTGTACGCTGGGCTCGCTATCTCTCCCACCTGCAGGGCGGCGCTACCGAGCTCCACCACGTCTTCACCTGCCTCAGGACCATCGACTACACACACattgACCCGTTGTTGTTGATGAAGGCTGCTCTGATCCTGCAGGCGTGTCAGCGCTGCCCTGGTGTTA
>TU166920
CTGTGATTGCCACCAATTAGCTACATCTTagtgttgttattgtttctattatcTTAAATAGAGCAAATTTCTAATAAATCTAAAGAGATGTACAGAAACGAGTGGAACAGATGTttagatgtgtttatatacgttACATCAGTATAGagtaaagagagtgtgtgtgtgtgtgtgtgtgtgcgtgcagaaTGGTGACCACACAGATGTCTCCAGAGCTGACGATGAAGGTGATGGTGCATGAAACAGAGACGTACAGCCTACAGGAACAGAAGAAGCCATCCAGTGGGAGGAGCTCATTTCTGGCCACGCCCCATTCCAGCACAACGACGATGCCGGTGTTTCTGACGCCTTCTGAGCTGCACACGCTACGCCGCCCTCTAGTGGACAACTCCGCGTCCTGCAGATCTGAATCTCCTGAGCGACCAGTGAAACCCCGCCTCCTTTCTCGCACTCTCTCTGACACTCCGATCAACGACCCATCGTCCAGTCAGATGCTCACGTCCTCCCCTGACTCCTCCCTCTCTGATGATGCGA
>TU166932
cctcAGATCTGAATCTCCTGAGCGACCAGTGAAACCCCGCCTCCTTTCTCGCACTCTCTCTGACACTCCGATCAACGACCCATCGTCCAGTCAGATGCTCACGTCCTCCCCTGACTCCTCCCTCTCTGATGATGCGAGCTTCAGCTTGTGTCCCTCGTTAGCGAGTATGTCGTTTCGCTCCAGCGTGGCGAGCCAGCCAGGAGAAGGAGACGACGCTGCCGAGTCACATGACCACGCCATGGCCAATGAGGTGCTTCCGTTTGAGGACGGCGAGCGGGAGCAGGTCGATGATGTCAGCGCCGGGTATCAGAACCACAGCAGCAGTGAGGATGAGAATCTCCGAGACGatgaagagaaggaggaggaaggggCGGGGCAA
>TU166933
cctcAGATCTGAATCTCCTGAGCGACCAGTGAAACCCCGCCTCCTTTCTCGCACTCTCTCTGACACTCCGATCAACGACCCATCGTCCAGTCAGATGCTCACGTCCTCCCCTGACTCCTCCCTCTCTGATGATGCGAGCTTCAGCTTGTGTCCCTCGTTAGCGAGTATGTCGTTTCGCTCCAGCGTGGCGAGCCAGCCAGGAGAAGGAGACGACGCTGCCGAGTCACATGACCACGCCATGGCCAATGAGGTGCTTCCGTTTGAGGACGGCGAGCGGGAGCAGGTCGATGATGTCAGCGCCGGGTATCAGAACCACAGCAGCAGTGAGGATGAGAATCTCCGAGACGatgaagagaaggaggaggaaggggCGGGGCAA
>XM_034306906.1
tttcctcctcttttctctcacaTGACACTTACTTGTGACCAACATTCCAGACTTTTAGAAAGATTTTCCTctaaagtgagaaagagagagaaagaacgaaGGAAATGTCAcattaaggggaaaaaagctttgtttttatgttaaaatcGGGATTTTTTAACGCTGAAGTGACAGAAACACTGACCTGAGTTCGGATTAACAGggatggagggaggacGGAGGATGGAGCGTCTCTGATAAAGGATAAAGGTTTAATCTGCACCGTGTTTCTGAATCACTCAGTAACAAGCAACATGGCTGAGACACGACACACCGACAGCTCACGctgCAGCTGTTTCTTCCTGTACGATCGCTCTAAAGTTCAGGAGGAAGGCGATCTGACCCGCGCCGGAATCTGCTACTACTATCCTGAacacactcCGTTGGATCTGCAGGAGCTGGTCTGTGGTCAGCTGGCTGGTGTGAGTCGCTGTGTGTCAGAGATTTCAGCGTCTCCCGTCCGGCTGCTCCGTCTGCGCAGGAGCAAATACGCCATCCGCATGAGAGACGACTTCCtctgggctctgAGCTGTGTAAATGATCTCCCggatgtcaggtgtgattttctgGATCAGATGATTGATCTGTTCTGTTTCTATAACGGTTCGGTGCGTCGCAGCTATCAGCTCCACACTCAGGAGGAACTGGCTGTACGCTGGGCTCGCTATCTCTCCCACCTGCAGGGCGGCGCTACCGAGCTCCACCACGTCTTCACCTGCCTCAGGACCATCGACTACACACACattgACCCGTTGTTGTTGATGAAGGCTGCTCTGATCCTGCAGGCGTGTCAGCGCTGCCCTGagtgtgtgtgtgtgtgtgtgtgtgcgtgcagaaTGGTGACCACACAGATGTCTCCAGAGCTGACGATGAAGGTGATGGTGCATGAAACAGAGACGTACAGCCTACAGGAACAGAAGAAGCCATCCAGTGGGAGGAGCTCATTTCTGGCCACGCCCCATTCCAGCACAACGACGATGCCGGTGTTTCTGACGCCTTCTGAGCTGCACACGCTACGCCGCCCTCTAGTGGACAACTCCGCGTCCTGCAGATCTGAATCTCCTGAGCGACCAGTGAAACCCCGCCTCCTTTCTCGCACTCTCTCTGACACTCCGATCAACGACCCATCGTCCAGTCAGATGCTCACGTCCTCCCCTGACTCCTCCCTCTCTGATGATGCGAGCTTCAGCTTGTGTCCCTCGTTAGCGAGTACGTCGTTTCGCTCCAGCGTGGCGAGCCAGCCAGGAGAAGGAGACGACGCTGCCGAGTCACATGACCACGCCATGGCCAATGAGGTGCTTCCGTTTGAGGGCTCGGCACCAGGTAAAGGTGAGGACGGCGAGCGGGAGCAGGTCGATGATGTCAGCGCCGGGTATCAGAACCACAGCAGCAGTGAGGATGAGAATCTCCGAGACGatgaagagaaggaggaggaaggggCGGGGCAAGAGAGTGATGtcagagagaggaggagtgacggagaggaggagtgtgtgaggggtgtgaggGCGTGGACGTGGTTCTCCGAGCCCATGCTGCTGTATGAGCACCGGGTCAGAGGGGCTCGACTCATGCTGCTGGTGGAACCCAGCTTCGACACACACCCTaacgccaaacaggaagtgtACCACAGCAGTCTGGCGTCTCTGAACGGACTCGAAGCTCACCTGAGGACGATCCCACCTCCGTCCGAGATCCCCGCAGCGCCGTACACTTTCGCCCACTACGACCGCATCCAGAACACACTCACcagtgactTAACATGTCTGGCCGTTCTACCGGACTTCAGGATCGCTCTGTTTGTGAAAGCTACAGCTCTTCTGCACTCCCACTTCTCACACGAGGACATGCTGCAGGAAGCCattatcagaagCGCCAGCTGTGCTCTCTATGCCACTCGCACTCCGGCTCAGGAGACCTTCTTCGTCCAGCAGGGGGCCCCCGCAAGGAATTCTGGGATACCGAACGGCCAGGACAGCGCCTTCTCTCTGCCGAGTAAAGCTCGCCATCGCTTACTCAAACATGGAGTCAACCTGCTCTGagctacagacacacactctctctcacacacacacacacacacacacacacacacagatgcctgtgattATTAATGACCTTTACACTGAGGTTCAGTGTATTAGCTGTGTAGTAACTAATAAACTagcactagtgtgtgtgtgtgcactactTAGGGCATGAAGTAAAGTCCCCTACGCACTACGTAGTGTCTAAATTCACTCCCTACTGTATACTGAGTGCGACGATATTAGCTAAATACCTCAACGACTAGCTAACATTCCCACATTCTTATGATTATTTGAtatacttttttgtatttttcttattttgtgtcgtgtgtgtgtgtgtgtgtgtatttcctaCTAAAACATATAcactttctggaaaaaaaaaagggtactaagCCGTACCTTTCGTTGTCACTGGAGTGGTACCCTCAAACATACACCTTTAGTacctttgtacctttagtacctTTTCCCTACAACTGTGCGTgtagtttaaatatttaaaggtcCACATTTATAGGCACTAAATGTACTAAAAATAAGGGAAATAAGGATTAAGGCAaaaagaaaagtacagtttgcTACCCTTATTTTCCTGAGAGTGTAAAAGCATATTGATGTTTTAAAgcttatttgtaataaataataaataaaggtaataTTTGTAGTACAAAATGTAGTGTTATTGTTGCATTCGTGTTGTTAATAAAGTGCTGGAGCTATTca

Function

symbol description
hps4 Predicted to contribute to guanyl-nucleotide exchange factor activity. Predicted to be involved in melanosome assembly and protein targeting. Predicted to act upstream of or within vesicle-mediated transport. Predicted to be part of BLOC-3 complex. Predicted to be active in cytoplasmic vesicle and lysosomal membrane. Human ortholog(s) of this gene implicated in Hermansky-Pudlak syndrome; Hermansky-Pudlak syndrome 4; and schizophrenia. Orthologous to human HPS4 (HPS4 biogenesis of lysosomal organelles complex 3 subunit 2).

NR:

description
PREDICTED: Hermansky-Pudlak syndrome 4 protein isoform X1

GO: NA

KEGG:

id description
K20194 HPS4; Hermansky-Pudlak syndrome 4 protein

RNA

RNA id representative length rna type GC content exon number start site end site
TU166919 False 835 TUCP 0.51 7 29903528 29924206
TU166920 False 534 TUCP 0.49 3 29925577 29926469
TU166932 False 379 TUCP 0.59 2 29908415 29926735
TU166933 False 379 TUCP 0.59 3 29908415 29926735
XM_034306906.1 True 2795 mRNA 0.50 16 29903513 29929070

Neighbor

gene id symbol gene type direction distance location
LOC113546087 LOC108264941,LOC108412053 coding upstream 270 29899457 ~ 29903243 (+)
prkab1b aakb1 coding upstream 16158 29878359 ~ 29887355 (+)
msi1b msi1,LOC107687968,LOC107712472 coding upstream 59043 29820503 ~ 29844470 (+)
lzts1 LOC108264908 coding upstream 103569 29788461 ~ 29799944 (+)
gfra2a LOC108264921 coding upstream 207482 29624140 ~ 29696031 (+)
LOC113546086 NA coding downstream 1179 29930249 ~ 29932961 (+)
hnf1a hnf1a,LOC108412048 coding downstream 3896 29932966 ~ 29946606 (+)
lrrc75ba lrrc75ba,LOC108264915,LOC108414797,LOC107753104 coding downstream 181727 30110797 ~ 30131740 (+)
LOC113546114 NA coding downstream 204866 30133936 ~ 30160538 (+)
rnf34a LOC108264913 coding downstream 248412 30177482 ~ 30181554 (+)
G140943 NA non-coding upstream 398641 29503683 ~ 29504872 (+)
G140935 NA non-coding upstream 482219 29420880 ~ 29421294 (+)
G140910 NA non-coding upstream 605716 29297050 ~ 29297797 (+)
G140884 NA non-coding upstream 657197 29239482 ~ 29246316 (+)
G140830 NA non-coding upstream 737307 29158731 ~ 29166206 (+)
G141247 NA non-coding downstream 8438 29937508 ~ 29954068 (+)
G141235 NA non-coding downstream 20788 29949858 ~ 29968041 (+)
G141236 asphd2 non-coding downstream 35697 29964767 ~ 30022919 (+)
G141324 NA non-coding downstream 113772 30042842 ~ 30043393 (+)
G141328 NA non-coding downstream 114856 30043926 ~ 30098842 (+)
LOC113546008 LOC108264940,LOC108412050 other upstream 27233 29860188 ~ 29876280 (+)
LOC117597881 LOC108265326 other upstream 551751 29325934 ~ 29351762 (+)
slc7a4 slc7a4 other upstream 1100339 28748834 ~ 28803174 (+)
arpc5la arpc5la,LOC108265305,LOC108411248,LOC107571143,LOC107753090,LOC107550963,LOC107676626 other upstream 1876063 28019184 ~ 28027450 (+)
dbnlb dbnl other upstream 2043811 27838245 ~ 27859702 (+)
ggt5a LOC108264907 other downstream 99791 30028861 ~ 30040856 (+)

Expression


Co-expression Network