RNA id: XR_004578583.1


Basic Information

Item Value
RNA id XR_004578583.1
length 571
lncRNA type inter_gene
GC content 0.37
exon number 3
gene id LOC117597821
representative True

Chromosome Information

Item Value
chromosome id NC_047595.1
NCBI id CM018541.1
chromosome length 35600603
location 247132 ~ 248138 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

ctgtacactggagatactgagcTTGTCTTcctgcagtattacagatgaaggttgtgctgctctggcttcagctctgaggtcaaactcctcatcacacctgagagaactgaacctgaacAACAATAATCCAGGAGagtcaggagtgaagctgctctctgatctactgaaggatccacactgtacactggagacactacaCATTACGAGCTGAATCATTCACATTCAGATGTAGAAGTTCCACAACAATCACCGTGACTGATCACATCCTTTATCCACTCAGCTCACGTCACTTCAGACtggaataatatattttatcatgCAAAGTCcttcactatttacacacaacacaataacatCTTTTctactgcattttaaatgataatgtaaacatgtaaaactgCAACACGCTTCGACTATTAAagttatttacataattttaaaagcagaattaaattaattcttgtacatttactgtatgtaaacCTGTTATTCCATACAATTATGTATATATGCTGATATATTTATCTACAGTATGTGTAATACAAAATAAACGGTGACTGGGAACACACAa

Function

GO:

id name namespace
GO:0030163 protein catabolic process biological_process
GO:1901565 organonitrogen compound catabolic process biological_process
GO:0009057 macromolecule catabolic process biological_process
GO:0044257 cellular protein catabolic process biological_process
GO:0044265 cellular macromolecule catabolic process biological_process
GO:0051603 proteolysis involved in cellular protein catabolic process biological_process
GO:0022624 proteasome accessory complex cellular_component
GO:0008537 proteasome activator complex cellular_component

KEGG:

id description
ko04612 Antigen processing and presentation

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU246 lncRNA downstream 32457 213294 ~ 214675 (-) True G187
TU227 lncRNA downstream 60285 131363 ~ 186847 (-) False spag1b
TU25 lncRNA downstream 233092 13277 ~ 14040 (-) True G21
XR_004578584.1 lncRNA upstream 128 248266 ~ 252164 (-) True LOC117597824
TU255 lncRNA upstream 42699 290837 ~ 295782 (-) True G190
TU256 lncRNA upstream 42699 290837 ~ 293189 (-) False G190
XR_004579077.1 lncRNA upstream 62326 310464 ~ 329128 (-) True LOC117598405
TU257 lncRNA upstream 81698 329836 ~ 330144 (-) True G191
XM_034306088.1 mRNA downstream 37895 198652 ~ 209237 (-) True wnt4b
XM_034306083.1 mRNA downstream 51555 166197 ~ 195577 (-) False chd4b
XM_026911618.2 mRNA upstream 82300 330438 ~ 333931 (-) True rps9
XM_026914011.2 mRNA upstream 271432 519570 ~ 523775 (-) True LOC113526714
XM_026914015.2 mRNA upstream 282806 530944 ~ 540579 (-) True mal2
XM_026914013.2 mRNA upstream 294530 542668 ~ 552787 (-) True colec10
XM_026914137.2 mRNA upstream 566397 814535 ~ 830355 (-) False sh3d21
TU238 other downstream 81063 158802 ~ 166069 (-) True ptpn6
TU237 other downstream 85066 158802 ~ 162066 (-) False ptpn6
TU214 other downstream 108288 137374 ~ 138844 (-) False spag1b
TU197 other downstream 192046 25594 ~ 55086 (-) False zbtb7b
XR_004578951.1 other downstream 225849 7972 ~ 21283 (-) False khdc4
TU694 other upstream 350643 598781 ~ 599166 (-) True G502
XR_004578099.1 other upstream 429263 677401 ~ 677800 (-) True LOC117597201
XR_004578455.1 other upstream 2192708 2440846 ~ 2451520 (-) False hint3
TU1883 other upstream 2670190 2918328 ~ 2919811 (-) False eny2
TU2085 other upstream 2995697 3243835 ~ 3281162 (-) True G1718

Expression Profile