RNA id: XM_026913091.2


Basic Information

Item Value
RNA id XM_026913091.2
length 5277
RNA type mRNA
GC content 0.45
exon number 22
gene id usp4
representative True

Chromosome Information

Item Value
chromosome id NC_047596.1
NCBI id CM018542.1
chromosome length 35203048
location 15255646 ~ 15274217 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

CGTTGGTTCAACCTCAAATGAATCTGTACTCCCTGTGTAAGTGCACTAAAAGGGTATGAAGTAACGACATCCACCCTATATGTGGTGCACTATGTATGTCCACTTGCGAGTCATTTGGGATGTAGCCGCTGTGATCACTGACCGACCGTCTCTAGCAGTAAACAGAGTTATAGCAACGGCTCGAATGCTTCATTTATCTTCTTCCCTCGGCATTGTTTAGGTTCAAACAAAGTCAGCAAGACTTTTCAGTAAGAGTTTGGATGCGTTTTCAACAGACAAGTCTATTTTGATGAACATGCGTTGAATACATCCTGTACAAAGAgtatctttttgtttgtttgtttgtttatttatttagtaaacCCCCGTTAGCATTAGCTTGCGGCTAGATatagatcattattattattctcatcTTCGGTTAATTCTTATTAAAGCTGTTTTATGTTTGGAGAATGGTGTATGAATATATAGGTGACGCAGTTGAACTGTTTAATGCATGTGACTGTAAATCCCAGGAATTGGacgtgcgtgtgcgcgtgtgtgtttagTTAGCTTAGCCACACTAGCGCGTCTCCTGCAGCTGCACTCGCGCTCAGCGGCTTCACTCAGTGCGCCATGGCGGAGGGAGGTGGACCCGAGCCGGGCAACGCTGCAGAGCCTGTCGCGGAGCCCGTGGCCGCTCAAACCCCGCTCCCTTCAATCGACAGTCAAAAGCAGACCATCGGAGCTCTTCTGAAAACTACACTCCGGAAAGGAGACGAATGGTTTTTGATTGACAGTCGATGGTTCAAACAGTGGAAAAAATATGTGGGCTTTGATAGCTGGGATTTGTACAATGTCGGGGAACACAACTTGTATCCTGGACCCATCGACAACTCTGGGCTTTTTTCAGACCAGGAAACCCAAGCGCTGAAGGAGCATCTCATAGATGAGTTAGACTATGTCCTAGTGCCTACAGAAGCATGGAATAACCTCGTCAGCTGGTATGGATGTCTAGAAGGCCAGCGGCCCATCGTCAGGAAGGTGGTTGAGCATGGTATGTTTGTGAAGCACTGTAAAGTGGAAGTCTATCTGCTCGAGCTGAACCTGTGTGAGAATGACAACATGGACAACGTGGTCACCCGCCATTTCAGCAAAGCCGACACTATTGATACCATTGAGAAAGAGATGAGGACTCTCTTTAATATCCCATCAGAAAAGGAGACTCGGTTGTGGAACAAGTACATGAGTAACACTTATGAGCAGTTAAACAAGCCTGACAGCACAGTTCAGGATGCCGGGCTTTTTCAGGGCCAGGTACTTGTGattgagagaaagaatgaagatGGCACGTGGCCCAGACAAGCCTCCCATCCAAAGTCCAGTACAGCCACCTCTAGGACTTTCACAACGTCACCGAAGCTGTCCTCCAACTCCTCTGCCACCATTTCTTCCACAGTGACCAAtggagacagcagcagcagcaactcGAGTTACATGCTGAACAACAGCACGTCTGCTGGAATCAGGTTGGGAGGATACAGCTCGTACAGCTCGTCCTACAGTTATAGAGAGTCTGCCTCTCAACCAGGCCTGTGTGGCCTCAGCAATCTGGGCAACACCTGCTTCATGAACTCTGCACTCCAgTGTCTGAGCAATTCACCCCCACTGACAGAATATTTTCTGGAGGACAAGTATGAAGCCGAGATCAACCGAGAGAATCCCTTAGGAATGCGAGGGGAGATCGCTGAGGCCTATGCAGATTTGATCAAACAGATGTGGCTCAGCCGGAGCAGCTATGTGGCTCCCCGCACTTTTAAAACACAGGTTGGCCGTTTTGCCCCTCAGTTCTCAGGGTACCAGCAGCAGGACTCTCAGGAGCTTCTGGCCTTCTTGCTTGACGGCCTACACGAAGACCTGAACCGTGTCAAGAAGAAGCCTTACTTGGCCTTGAGAGATGCAGAGGGCAGGCCAGATGAGATTGTGGCTAAAGAGGCATGGAAGAACCATCGGCTACGTAATGATTCCATCATTGTGGATATCTTCCATGGCCTGTTCAAGTCCACTCTGGTCTGCCCTGAGTGCTCCAAAGTGTCTGTCACCTTTGACCCTTTCTGCTACCTCACACTGCCATTGCCCATGAAGAAAGATCGCACCATGGAGGTGTTCCTGGTCCGCAATGACCCTCAGTCCAGACCCATGCAATTTCGTGTAGTGGTCCCTAAACTAGGTACAGTGGCAGACCTGTGCAGCGCTTTGGCCAAGCTATCTGGAGTTCCTGCAGAGAATATGGTCGTGGCTGATGTTTACAATCACAGATTCCATAAAATTTACAGAAAGGATGAAGGTCTCAACCACATCATGGAAAAAGATGACATCTTTATctATGAGGTGTTGGAGGAGGACAGTGAACAGATGAATCTGCCAGTATACTTCAGGGAGAGAGATGTGAAGCACAGCGGAGGCTCCTCGTGCACCATGCTGTTTGGGCAGCCACTCCTCATCACTGTTCCTCGTCACAACCTTTCCCCAGACACATTGTATGAGCGTGTGCTGGAAAGGATTGGGCGTTATGTGAAGCACTCGCCGGGTACCATGATGGAGAGCAGAGGGTATGCTACAGCCACGTCCTCTAGCAGCCATTCAGACGGTGGAGATTTAGTGTCTAGCCACAATGCAGGGCTAAGTGGCTGTAGCAGCCCAATGTCCAACGGGGCATCTGGCAGTGCTTGCTCTACCGCTGGCAGCAACCACTCTGACACCTGCAATGGGCCCaatggagtgtgtgatgGTGAAGAGGAAGCTATGGACCACCAGGTGAGCCCAGATCCAGAAAGCAGCCAGTCAGAGACTGTAGATGGGGAGGACGAGACCTCGGAGCCTGAGAATGGCCCGGTTACTACTACTGGAAAGACTTGTTCTTCCCGGCCTAAACTTTTCTCTTTTAGCATGGTGAACTCCTATGGCACGGCTAACATCAGTCCCTTAGCTGGCAACGTCCTCAAACTCACACcACATTCCACAATAGCCATTGACTGGGACTCAGAAACCAAAAGACTGTGCTACAATGACCAGGAGGCAGAGGCTTACGAGAAACACGAGAGCATGATGCAAGCTCAGAAAAAGAAGGCCACAGTGGCTCTGAGGGAATGCATTGAGCTCTTCACTACCATGGAGACTCTGGGAGAGCACGACCCATGGTACTGCCCCACCTGTAAGAAGCACCAGCAGGCTACGAAGAAGTTTGATCTGTGGTCCCTACCCCGCATTCTGGTGGTTCATCTGAAACGCTTCTCCTACAACCGCTGCTGGAGAGACAAACTGGATACTGTGGTTGATTTCCCCATCAGGGATCTGAACATGTCCGAATTTGTCTGCGACCCTAAAGCTGAGCCATATGTATATGACCTTGTTGCTGTCTCCAACCACTATGGAGGAATGGGTGGAGGCCACTATACCGCATATGCTAAGAATAAGGCTGATAAGAAATGGTATTATTTTGATGACAGCAGTGTGTCCTCTGCCTCTGAGGATCAGATAGTGACTAAGGCAGCCTACGTGCTTTTCTACCAGCGGCGAGATGGAGAGGGTGCATCCAGATCCACTCCGTCTGCATCGCTCGGAGGAGCTTCCGACTCTCTGGATGACCACATGGACACCAACTGACTCTCGTTTGTCATTCGGCACAGGCACTGAAATAAAAGCTTCATGAACAAATGATCATTGATTGACATCCCAGGTTTTTCAGCGCTTTGACATGGAGGTCCAGCGTTTTCTGCTTTGTTTCCTACACTTATTTTCCATGAGCCAAGAAGGattaaaaaatcacaataagaatgaaaataaataagtgaaaattttagttttaattgtGACATGACTTTTTGCCTGCACTgctctttaatttaaaatagaaaCGAAATGAAAATTCAGTCTTGCCTGATGTCAGGAATGCTAAAAAATGTTGCATAACATTattgcaatgaaaacaaattcTTTTGTCACCCAGTAGAATACAGAAAGAAGCCAAATGTTTTGTGCTATATCAACCAAAGTTGTATGGGTTGGTGGCATTTAAGATTGTCAGGTCAGGGGAAATGTATGCAAAAATAAGATGTTTAATTCTTTCCCCTCTACAGTCTCCCATTACACTCTGAAAGGGTTTAGTTAAATGTGCCTCTTGTGAGGAATAGAGTCTTCTCAGATAAAACAGGAGGCTTTTCTTTACTGACTATCCACCTGAGACTTTCAGTAGAGTCTTTAACACGTACTTCACTCTTAAGGCTTGAAGCCTGGGGTGAATAGCATAGGCTAAACTATAGCTAAGGTTGTGATAAAGATGATTACACTGCTGATCTTTTATTGTGCTGCTCTCTGAAATGTTAGCACTAGCTGCCTTTCTGCCCCAAGAACTGTTAAAAGGGGGCTTGTGTGAGtggatttaattttaaatttagtgGTACACTTAGATGTCCAGCTTGTTTAAAAGGCACTGAGGTTTATAATACATGCTATTGTTTGGTTAAGACCACATTTGCAATATTCACTGCTTCTGATTGACTCTTCCACTTTGGTGAATTTTtatgtagttatttttattttatttttttttgttctgggACATTCTGCTCGCCTCTAAGGCCAGGTAGAGAGGCGCATCGAGTCACTGCTCGAGAGTGGTGCTAAATTTGAGACTTGAAAAGGCTGCAGCTATTGGCTGGAAACTTTAGGTCGATGCTATGTAGAGGCTTTACACATTCACTAAATACAATATTACTCTGTCCTACCTGCCACCCTTTACATTTTCAATTTGCTATCATTGGTTGCGGTATTATTTGCTTTCTATACATTCTAGCAGAATGTTGTCCACACGGTCCTTTTGTGTTAAGAATTTACCGTCAATATGCATCTTTGATCTTATGCTTTTCTGTGGAACAGCAGCATGCATGTGTCTTGAAAAatttgcaaaatgaaaaattgttgGTTAGTCCCCATGTGTTTATCTCTTTTCAGTCTGACAGGCTGCGATAAGTACATGCTTAATTTCCTGCTACAATATTGTACAACTTGGAGCCTAGAATTATGATATACTGGccaatgcattttttaaagtgtcACATTGTCAGAATAACATCCATTtaaaaagattcattttcagAGATGTTGCCTAGATGTAAATAGTCATGTACTATCTGCAAAATAGGATATCTTTGTGTTCTGATATTTATCATGGCAATATGTGCAAGGATTTTGAAAACAATTAAATCAAAAAGACAATAAAGAATTGAAGCCTAA

Function

GO:

id name namespace
GO:0016579 protein deubiquitination biological_process
GO:0006511 ubiquitin-dependent protein catabolic process biological_process
GO:0004221 obsolete ubiquitin thiolesterase activity molecular_function
GO:0008234 cysteine-type peptidase activity molecular_function

KEGG:

id description
K11835 USP4_11, UBP12; ubiquitin carboxyl-terminal hydrolase 4/11

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU32642 lncRNA upstream 148472 15106957 ~ 15107174 (+) True G27679
XR_004577376.1 lncRNA upstream 375222 14876678 ~ 14880424 (+) True LOC117596203
XR_004579401.1 lncRNA upstream 405525 14813879 ~ 14850121 (+) True LOC117598849
TU32379 lncRNA upstream 463024 14792411 ~ 14792622 (+) True G27450
TU32212 lncRNA upstream 651100 14562217 ~ 14604546 (+) True G27311
TU32702 lncRNA downstream 2423 15276640 ~ 15278716 (+) True G27733
TU32738 lncRNA downstream 197315 15471532 ~ 15471756 (+) True G27764
TU32743 lncRNA downstream 215319 15489536 ~ 15489764 (+) True G27769
TU32973 lncRNA downstream 340807 15615024 ~ 15616714 (+) True G27979
TU33046 lncRNA downstream 500159 15774376 ~ 15775849 (+) True G28040
XM_026913120.2 mRNA upstream 113 15249305 ~ 15255533 (+) False emc3
XM_026913112.2 mRNA upstream 113 15249306 ~ 15255533 (+) True emc3
XM_026926121.2 mRNA upstream 9748 15240334 ~ 15245898 (+) True sec61a1l
XM_026921306.2 mRNA upstream 25194 15222690 ~ 15230452 (+) True ip6k2a
XM_026948136.2 mRNA upstream 65621 15171801 ~ 15190025 (+) False LOC113547608
XM_034313516.1 mRNA downstream 4605 15278822 ~ 15283378 (+) False fancd2
XM_034313505.1 mRNA downstream 4623 15278840 ~ 15304494 (+) False fancd2
XM_026917572.2 mRNA downstream 4625 15278842 ~ 15304494 (+) True fancd2
XM_034313514.1 mRNA downstream 17063 15291280 ~ 15304494 (+) False fancd2
XM_026920001.2 mRNA downstream 34622 15308839 ~ 15384094 (+) True tex264a
trnaf-gaa_15 other upstream 63990 15191584 ~ 15191656 (+) True trnaf-gaa_15
XR_004577012.1 other upstream 1754350 13498298 ~ 13501296 (+) False tshba
XR_004577011.1 other upstream 1756281 13495857 ~ 13499365 (+) False tshba
XR_004580083.1 other downstream 4610 15278827 ~ 15294354 (+) False fancd2
TU33403 other downstream 907101 16181318 ~ 16182303 (+) False mustn1a
TU34871 other downstream 3500553 18774770 ~ 18826920 (+) False G29569
trnai-aau other downstream 3543185 18817402 ~ 18817475 (+) True trnai-aau
TU35395 other downstream 4260224 19534441 ~ 19537014 (+) False smx5

Expression Profile