psmc4 (psmc4,LOC107719110)


Basic Information

Item Value
gene id psmc4
gene name psmc4,LOC107719110
gene type misc
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 774289 ~ 806528 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_034298115.1
CGTTTGTTTACCCTCATTAGCGTGACGTCTGCGCGTGACGTCACTCGACGTCAGATCCTGTATAATCCAACATGGAGGACGGCGGAGTGCTAGTGGAGAGAGCTCAGgacgATGTTCCAGCCATGCTGAGCTCACGGCCTCAGACCGGTTTGTCCTTTTTGGCCCCAGAGCCTGAGGATCTGGAGGATCTGTACAGCAGATATAagAAGCTGCAGCAGGAGCTGGAGTTTCTGGAGGTGCAGGAGGAGTACATTAAAGATGAGCAGAAGAACCTGAAGAAGGAGTTCCTCCACGCTCAGGAGGAGGTGAAGAGGATCCAGAGCATCCCGCTGGTCATCGGGCAGTTCCTGGAGGCCGTGGACCAGAACACGGCCATCGTGGGCTCCACTACGGggtcgAATTACTACGTGCGGATCCTGAGCACTATAGACCGAGAGCTGCTGAAGCCCAACGCCTCTGTGGCTCTGCACAAACACAGCAACGCTCTGGTGGACGTTCTGCCTCCGGAGGCCGACAGCAGCATCATGATGCTCACCTCcgATCAGAAGCCGGATGTGATGTACGCTGATATCGGAGGGATGGACATCCAGAAGCAGGAGGTGCGGGAGGCCGTGGAGCTTCCCCTCACACACTTTGAGCTCTATAAGCAGatTGGTATCGACCCCCCGAGAGGTGTGCTGATGTACGGACCCCCCGGCTGTGGGAAAACCATGCTGGCTAAAGCGGTGGCTCACCACACCACAGCGGCGTTTATCCGCGTCGTGGGCTCTGAGTTTGTTCAGAAATACCTGGGTGAAGGGCCGCGTATGGTCAGAGACGTGTTCCGATTGGCCAAAGAGAACGCACCTGCCATCATCTTCATCGACGAGATCGACGCCATCGCCACCAAGCGCTTCGACGCACAGACCGGAGctgaCAGAGAGGTGCAGAGGATCCTCCTGGAGCTGCTGAATCAGATGGACGGATTCGACCAGAACGTCAATGTGAAGgtgatcATGGCCACTAACAGGGCCGACACTCTGGACCCGGCTCTGCTGCGTCCTGGTCGTCTGGACCGTAAGATCGAGTTTCCTCTGCCGGACCGCAGACAGAAACGCCTCATCTTCTCCACCATCACCAGCAAGATGAACCTGTCTGAGGAGGTGGACCTGGAGGACTatgttgcTCGACCGGACAAGATCTCTGGAGCAGATATTAACTCCATCTGCCAGGAGgCTGGCATGCTGGCTGTGCGTGAAAACCGTTATATCGTCCTGGCCAAGGATTTCGAGAAGGCTTACAAGACGGTCATCAAGAAGGACGAGCAGGAGCACGAGTTCTACAAGTAGAGACGCCGTTTCGTCACATCGGCGTTAACGTagctgttttttctttattattttctgtgtttatttgtatgcacacacacacacacacacacacacacacacagtatatcatTACAGTCTAGGCATCGGtgcctgagacacacacacacaca
>XR_004576966.1
CGTTTGTTTACCCTCATTAGCGTGACGTCTGCGCGTGACGTCACTCGACGTCAGATCCTGTATAATCCAACATGGAGGACGGCGGAGTGCTAGTGGAGAGAGCTCAGgacgATGTTCCAGCCATGCTGAGCTCACGGCCTCAGACCGGTTTGTCCTTTTTGGCCCCAGAGCCTGAGGATCTGGAGGATCTGTACAGCAGATATAagAAGCTGCAGCAGGAGCTGGAGTTTCTGGAGGTGCAGGAGGAGTACATTAAAGATGAGCAGAAGAACCTGAAGAAGGAGTTCCTCCACGCTCAGGAGGAGGTGAAGAGGATCCAGAGCATCCCGCTGGTCATCGGGCAGTTCCTGGAGGCCGTGGACCAGAACACGGCCATCGTGGGCTCCACTACGGggtcgAATTACTACGTGCGGATCCTGAGCACTATAGACCGAGAGCTGCTGAAGCCCAACGCCTCTGTGGCTCTGCACAAACACAGCAACGCTCTGGTGGACGTTCTGCCTCCGGAGGCCGACAGCAGCATCATGATGCTCACCTCcgATCAGAAGCCGGATGTGATGTACGCTGATATCGGAGGGATGGACATCCAGAAGCAGGAGGTGCGGGAGGCCGTGGAGCTTCCCCTCACACACTTTGAGCTCTATAAGCAGatTGGTATCGACCCCCCGAGAGGTGTGCTGATGTACGGACCCCCCGGCTGTGGGAAAACCATGCTGGCTAAAGCGGTGGCTCACCACACCACAGCGGCGTTTATCCGCGTCGTGGGCTCTGAGTTTGTTCAGAAATACCTGGGTGAAGGGCCGCGTATGGTCAGAGACGTGTTCCGATTGGCCAAAGAGAACGCACCTGCCATCATCTTCATCGACGAGATCGACGCCATCGCCACCAAGCGCTTCGACGCACAGACCGGAGctgaCAGAGAGGTGCAGAGGATCCTCCTGGAGCTGCTGAATCAGATGGACGGATTCGACCAGAACGTCAATGTGAAGgtgatcATGGCCACTAACAGGGCCGACACTCTGGACCCGGCTCTGCTGCGTCCTGGTCGTCTGGACCGTAAGATCGAGTTTCCTCTGCCGGACCGCAGACAGAAACGCCTCATCTTCTCCACCATCACCAGCAAGATGAACCTGTCTGAGGAGGTGGACCTGGAGGACTatgttgcTCGACCGGACAAGATCTCTGGAGCAGATATTAACTCCATCTGCCAGGAGgCTGGCATGCTGGCTGTGCGTGAAAACCGTTATATCGTCCTGGCCAAGGATTTCGAGAAGGCTTACAAGACGGTCATCAAGAAGGACGAGCAGGAGCACGAGTTCTACAAGTAGAGACGCCGTTTCGTCACATCGGCGTTAACGTagctgttttttctttattattttctgtgtttatttgtatgcacacacacacacacacacacacacacacacacacacacacacacacacacacacacacacacacacacacacacacacacggtgtttAACGCGAGTTTATTCAGCGacggAGACCTGTGATTGGCCAAGCCTGCGTCGCTAACGGCAACAGAACTGTAGTGACCGCTGAACTGTAGTGAAAGGAACTAG

Function

symbol description
psmc4 Predicted to enable ATP binding activity; hydrolase activity; and proteasome-activating activity. Predicted to be involved in positive regulation of RNA polymerase II transcription preinitiation complex assembly. Predicted to act upstream of or within protein catabolic process. Predicted to be located in cytoplasm and nucleus. Predicted to be part of cytosolic proteasome complex and proteasome regulatory particle, base subcomplex. Predicted to be active in synapse. Orthologous to human PSMC4 (proteasome 26S subunit, ATPase 4).

NR:

description
PREDICTED: 26S protease regulatory subunit 6B

GO:

id name namespace
GO:0030163 protein catabolic process biological_process
GO:0006508 proteolysis biological_process
GO:0000502 proteasome complex cellular_component
GO:0005737 cytoplasm cellular_component
GO:0005524 ATP binding molecular_function
GO:0017111 nucleoside-triphosphatase activity molecular_function
GO:0008233 peptidase activity molecular_function

KEGG:

id description
K03063 PSMC4, RPT3; 26S proteasome regulatory subunit T3

RNA

RNA id representative length rna type GC content exon number start site end site
XM_034298115.1 False 1480 mRNA 0.55 11 774289 782966
XR_004576966.1 True 1589 misc_RNA 0.55 13 774289 806528

Neighbor

gene id symbol gene type direction distance location
gramd1a gramd1a,LOC108256231 coding upstream 28769 719389 ~ 745520 (+)
LOC113524791 LOC108256242 coding upstream 93919 674868 ~ 680370 (+)
pycard NA coding upstream 110313 658481 ~ 663976 (+)
etsrp LOC108256243 coding upstream 116897 650918 ~ 657392 (+)
zgc:162160 LOC108256255,LOC108437392,LOC107719116,LOC107666762,LOC107737835,LOC107592933 coding upstream 250132 505314 ~ 524157 (+)
si:dkey-199f5.8 LOC108256292,LOC106605235,LOC108437381,LOC106582539,LOC102233588 coding downstream 113 806641 ~ 816145 (+)
cep85 cep85 coding downstream 25317 831845 ~ 843562 (+)
atp2c1 atp2c1,LOC107666823,LOC107592020,LOC107668304,LOC107600500 coding downstream 51582 858110 ~ 893602 (+)
rpp25l LOC108256289 coding downstream 97935 904463 ~ 906704 (+)
LOC117595801 NA coding downstream 102100 908628 ~ 914250 (+)
G324216 NA non-coding upstream 20846 749451 ~ 753443 (+)
G324197 NA non-coding upstream 60488 713395 ~ 713801 (+)
G324160 NA non-coding upstream 166746 607045 ~ 607543 (+)
G324156 alkbh8 non-coding upstream 175119 598410 ~ 599170 (+)
G324125 NA non-coding upstream 185380 585179 ~ 588909 (+)
G324284 scap,LOC102785784,LOC107600505 non-coding downstream 504383 1310911 ~ 1315115 (+)
G324294 scap,LOC107666822,LOC107600505,LOC107713836 non-coding downstream 523119 1329647 ~ 1330871 (+)
G324303 NA non-coding downstream 533000 1339528 ~ 1368639 (+)
G324305 NA non-coding downstream 534597 1341125 ~ 1342780 (+)
G324328 NA non-coding downstream 572018 1378546 ~ 1378940 (+)
G324206 NA other upstream 25814 745673 ~ 748475 (+)
G324123 NA other upstream 139244 567202 ~ 635045 (+)
G324161 fbl,LOC107719117,LOC107666874,LOC107737817,LOC107686016,LOC107600489 other upstream 164280 607612 ~ 610009 (+)
G324143 NA other upstream 216150 557415 ~ 558139 (+)
G324120 NA other upstream 307664 454910 ~ 466625 (+)
cpne4a cpne4a,LOC108256561,LOC108412597,LOC107600547,LOC107713817,LOC107668284,LOC107666882 other downstream 150056 956584 ~ 1010223 (+)
G324258 LOC108256270,LOC108256266,LOC108256277,LOC108256272,LOC108256164,LOC108256268 other downstream 311740 1118268 ~ 1163614 (+)
smg5 smg5,LOC107726659,LOC107671430,LOC107728478 other downstream 1093098 1899626 ~ 1919710 (+)
bola1 bola1,LOC107592543 other downstream 1335664 2142192 ~ 2144525 (+)
LOC113533074 LOC108256184 other downstream 1398318 2204846 ~ 2215410 (+)

Expression


Co-expression Network