RNA id: XM_026932254.2


Basic Information

Item Value
RNA id XM_026932254.2
length 2609
RNA type mRNA
GC content 0.45
exon number 9
gene id pspc1
representative False

Chromosome Information

Item Value
chromosome id NC_047620.1
NCBI id CM018566.1
chromosome length 19313417
location 6870566 ~ 6910546 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

ATGGCAAACCGAAACCTTAAGCATGTAAACATTCAGAACAGTTCTCCATCTCCGAAGCCTCAAAATCCGAATCGCAACCCGGACTCTCCGTCCACGGAGCGCGTGCAGAAGATGGAGGGAGCGACGCCATCGCCTAAAGTCACAAGCCCTCAGCCAGAAGCAGAAGGCAGCAGCGAGCCTCGGGAAATGACTCTGGACCTGAAGAGTTTCAGGAAACCGGGagagaaaacatttacacagaggTGCAGACTGTTTGTCGGCAATCTTCCTACTGACATTACGGAGGAAGACTTCAGAAAGCTGTTCGCCAAATATGGCGAGGCTAATGAAGTATTCATCAACAGAGACCGAGGATTCGGATTCATTCGACTGgaaacaagGACATTAGCAGAGATTGCCAAAGCAGAGTTGGATGGAACAGTGTTGCGGAACAGGCCAATTCGCATCCGGTTTGCCACACATGGAGCTGCTCTCACGGTTCGAAACCTTTCACCAGTTGTTACCAATGAGCTCCTGGAGCAGGCATTTTCACAGTTTGGGCCCGTGGAGAGGGCAGTTGTGGTGGTAGATGATCGTGGCAGACCCACAGGTAAAGGCGTTGTGGAGTTTGCCAATAAGCCTGCTGCACGAAAGGCTCTTGACCGTTGTGCTGATGGAGCCCTTTTACTTACTACGTCTCCGCGGCCAGTTATTGTTGAACCAACAGAGCAGtttgatgatgaagatggtctTTCAGAAAAATTACTGCAAAAGTCAGCACAGTATCACAAGGAAAGGGAGCAGCCTCCACGCTTTGCCCAGCCAGGCACCTTTGAGTTTGAGTACTCGTCACGTTGGAAGGCGCTTGATGAGATGGAGAAACAGCAGCGGGAGCAGGTGAACAGGAATATCCAAGAGGCCAAGGAGAAACTGGAGGCTGAGATGGAGACAGCAAGGCACGAGCACCAGCTCATGATGATGAGACAAGATCTCATGCGACGTCAAGAAGAGTTGCGCCGACTGGAGGAACTGAGAAACCAGGAACTCCAAAAGCGCAAACAGATGGAGATGAGACATGAGGAAGAGAGGCGGAGACGTGAGGAGGAAATGATGCGCCACAGAGACCAGGACGAAATGAGACGTCAGCCTGATGGTTTTAAACCTGGCTTTATGGATAGCAGAGAACAGGATATGAGAATGAGTGAAATGGGTGCCCGTGGAGCCGTTAATATGGGAGATTCTTTTAATCCTGCCGCTGCTGTTAGCGGTAACCAGGGCCCTGCTCAAATGATGGGCATGGGCATGTCAGGCCGGGGTGGAGCCATGGGGCCAGAGGGATCATCAAATATGGGGGCACCTCTCATTCAAGATAACGGAAATATGCGTAATGAAAGATTTTCTCAGGGAGCACCTGCTCAGATGGGTTCTTCAATGGGTATTCGACCAGGTGTTGATTCCCCCCAGCAACAACAGTCACCTGTGATTGGTGGTGCAGGACCTGTGCCTCCTATGGGTGGTCCAGGTGGATTTGGGCGAGGAAATCCTGTTGGGGGAAACTTTGATGGGCCCAACAACAAGCGCCGTAGATACTAGGCTTTTCTGTCATGATAGTGGATTATAGTCTTTGATCCAGAACATCTAAACTCTTGCTTATGGATATTATTCATTTCCATGTCCTTTTCAGTGGCGCTGCTCTCAGGCAGTCAATAGTGTTGACCTTTGTTCCAAGTGTGTGAGACATAGCATGAAccatttttaatcatgaaatgaaaacagagcTCAGTTTTAAGACTGACATTGACTTAACTGCATATGCTGTAGGGAAAGTCATATTCTGGTCAGATGGAGCTTCTGAGGGGTTGCAGTGCTTCTGCTTAGTCCTTTTCCTACACTTTGCTTATTGTTGTAAGATCAGTCAAAGCTGGAAGAAATTTAATAAATCTACTTAATGACCATATCTGTACTGAGCTAAACAGTTTACCTGATTATATGGGACTTTATAATTTGATATGCTTCTGTGCAGTTCATTTTGTTCTAATCAGAACCTTCTATTTGACAAGACATGCTGGAAACAAATTAGTAGAATGAGAGCAGTATCTATTTTTTGGTTTCCTGGTTTCTGTATTTGCACAGTGTGAGTGGTAAGATCTATGTTACGCAGAAACCAAGAAATGGAACAAAATAAATGAGGCTGTGTGAGAATCTGAGTTTGCAAAAAGCTCATTTCAAGTAACTACTTTTCTGTGGAAGCAAAGCAAAAAATACCTATACACTAATTATTAACAGTGTCTTATATACAGCatgttttaaacagaaacatattTCCAACCAAGAGATTCTAAGAATTTGTTTCATATAACATCTTTAAGTCCCATGTTATTAGATAAATGTTTTAGTGTAGCTTTTTGGCAAGAGCATGTTGCTTGGGCCATCCTATTTGTACAACATCTGATTTACAGTGATTGTTTTTTAGACTACTTCTAGTATATGGATCGTGACACTAGTGTATGTCATGTAGAATGTGCATGCCTTTTAGCAGTCGTTTTTGTTTtagtaaatattatgaatatgccaggttgttttcctttttcttaaaTGGCGGTTATTGAATAAAAGTACTTAAAAAGTTA

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0016363 nuclear matrix cellular_component
GO:0016607 nuclear speck cellular_component
GO:0005730 nucleolus cellular_component
GO:0005737 cytoplasm cellular_component
GO:0000166 nucleotide binding molecular_function
GO:0003723 RNA binding molecular_function

KEGG: NA

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU440265 lncRNA downstream 2257 6879870 ~ 6881780 (-) True G371625
TU440266 lncRNA downstream 9617 6870572 ~ 6874420 (-) True pspc1
TU440272 lncRNA downstream 16077 6867744 ~ 6867960 (-) True G371632
TU440232 lncRNA downstream 68966 6808493 ~ 6815071 (-) True G371595
TU440098 lncRNA downstream 317092 6563849 ~ 6566945 (-) True G371487
TU440449 lncRNA upstream 241028 7151438 ~ 7153159 (-) True G371787
TU440456 lncRNA upstream 272766 7183176 ~ 7183386 (-) True G371793
TU440604 lncRNA upstream 446901 7357311 ~ 7378538 (-) False LOC113537388
TU440608 lncRNA upstream 500571 7410981 ~ 7415018 (-) True G371929
TU440643 lncRNA upstream 557379 7467789 ~ 7468460 (-) True G371964
XM_026932365.2 mRNA downstream 21934 6835427 ~ 6862103 (-) True arhgap20
XM_034300425.1 mRNA downstream 87898 6791160 ~ 6796139 (-) True mxh
XM_034299998.1 mRNA downstream 104747 6772355 ~ 6779290 (-) True LOC117595692
XM_034299997.1 mRNA downstream 113319 6748385 ~ 6770718 (-) False LOC113537509
XM_026932018.2 mRNA downstream 128139 6742587 ~ 6755898 (-) False LOC113537509
XM_026932381.2 mRNA upstream 47610 6958020 ~ 7025006 (-) True LOC113537750
XM_026932383.2 mRNA upstream 47610 6958020 ~ 7023760 (-) False LOC113537750
XM_026932382.2 mRNA upstream 47610 6958020 ~ 6985385 (-) False LOC113537750
XM_034299966.1 mRNA upstream 148425 7058835 ~ 7068469 (-) False LOC113537271
XM_034299965.1 mRNA upstream 148425 7058835 ~ 7068466 (-) False LOC113537271
XR_004577329.1 other downstream 520834 6358639 ~ 6363203 (-) False LOC113537742
XR_004577328.1 other downstream 850644 6019687 ~ 6033393 (-) False tpp2
XR_003403780.2 other downstream 931724 5942429 ~ 5952313 (-) False LOC113537623
XR_004577339.1 other downstream 1337005 5534472 ~ 5547032 (-) False LOC113537235
XR_004577289.1 other upstream 148425 7058835 ~ 7068467 (-) False LOC113537271
TU440391 other upstream 148425 7058835 ~ 7068531 (-) True LOC113537271
TU440780 other upstream 807853 7718263 ~ 7724795 (-) True G372086
TU440974 other upstream 1002056 7912466 ~ 7916321 (-) False fam155a
TU441267 other upstream 1410574 8320984 ~ 8329026 (-) False timmdc1

Expression Profile