RNA id: TU25441


Basic Information

Item Value
RNA id TU25441
length 3877
lncRNA type inter_gene
GC content 0.41
exon number 6
gene id G21333
representative True

Chromosome Information

Item Value
chromosome id NC_047596.1
NCBI id CM018542.1
chromosome length 35203048
location 4122995 ~ 4127844 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

TCTaactttattttcttaaaatcatAAAGAACATACAGTGCACAATGTTTAAACTAGTACACAAAGCAAATTTTCACTCTACGGGctccactgatttttttttttgttgttgttatgagTTGGTGAATAAAAACCTTATTTCCTGTCcagtgcactttatttaaactcAACTGCTTTGTAATTAAGACTAATTTAGCACCAAAACAGAGAACAAGGTTTCCAAATGCCAAATTTCTGCAAATGCAACAGAAGGACCACATGTTTTTCCTTAAGATTGCCATCAGCCAGACACTCACTGGGGGCAAAATTAAATCacttctttaaaaaacacaaaagaaaaacaaaaaaaaaataaaccaaaaacaaacccTGGGTTAATCTGCACTGatataattacaaaattatttttacctGTTGTCCAAACCTTGGCATGGTGTTTAGTTTTGGCTGCCAATTCATTTCTTTGATAGGAGGAATATTTGGCCAGAAGTCTATAAGTGAGGATTTTGACTTATTTCAAAATGAccttaaacattaaaaagcTCACACTACCCCGAAAAATAGAAGTTTCACGCATACAGGTGGCATTCAACATTCAAGTACCAGTGTTTTTGTACGGTCTTTTGGTCAAGTTAACATGAAACGATCACTTTTaggtttataaaaataaatatttctcaaaaatgcttaataaattacacaaactAGCAGCAAAAAGTAGAATCTAGTAATGTGTGCGCAAGTAGCTAAATTTCCCCATTGCCGATTCCCTGGTCCCAAATTAATCCTGGCTAAATATTGAGAACCCTTCCGTTTTGtaaacaagctgcattttttttttacagtctttACACAGAATATTGGAAGCTTAAGGACACACACTGAAGACTTTTATATAAAACTCTTGATGTGCAATAAAATAACGTTTTGTAAAACTTGATGGGCATAACATACAAGGGCCTACACCTAAATAGCACCACTTGTCTCAAGTTACCACAATACTGGTCAAGTGCATCCACTTCAGTTCACCATTTTCACctaaacttttttaaatgtcaaaagGCACAACATGCTTGAGGAAATCTATTGCACTTCAGTAAAATGTAGTATCACGTCCCCCCCCCTCCTTCACACCTCAACTCCTTAAAGGGAGAGGAAGTCACTGCCAGTTGCAATGAGTGATTGATGATCACGTCTCCACACTATCACCGAGGTCCTCAATTAACCTGAGGGTGGGAAGGAGAACTGCAACCATTACTTTGGCCAAGACACCAAGGAAACACCAGCTACtacaaaagaaaagtgtattagTCAAGACTCCAATGCCACTAGACTTTGCTTCCCCCTGTACAATTCCTCTTCCTGTGTACATTATTCCTGATTTCCCTCCCCCACATCCTTCAGAGGTCTTACAGGGAAGCCGTGTCTCTAGACCACAGATGGCTGAAATTCTGGGCCACTTGGGAAAAAGGTGGAAATGAAAATCTCCATGATATTCTTTGTTGCAAAAAGGAAAGCCTGCTTCAGAAAATTTTGTCGGACTATCTCcttgaccaaaaaaaacaagaacactTGCCATGCGAATTGCTGCAGAGATGGGCCTGGCATTTAGGGCCTGTCCACTCTGACACCGGTCCGAATATAGCAACTTGAACTTTTCACTGACGCAGTAGCTCATAGTCCACTGGTTTGTCCATTTCAAAAAGTATTTAgtaaaaagtataaaacacaTAATTGCCACTCCACAAAAGTTCAAGTAAGGAACAGACTGAAGAGACTGCACACCTCCAAACAGCTAGACTGTTTCTGAACTAGCTGCCTGAAAATGTTCTGATTCACATAAGAGCATACAAATGTTGTGCATCCAAACACTGGGGGTGAATGGAGGTACAAACTGCTCACTTCATGGTTACGGATATTAAATTGGAATGGCTTGCTAAATCTTTTTCAGATGACTACCACGTCCCTTAGAGATACCTCTCCAGGATAGAGTGAGCAAGATTAACATTTTCATTAAGATCTTCCTTCCCTTGCGAGGCAAGGGGAGAAACCAATGTAAGTAGGGACAGGTACATTTTTGAAATGAGCCTGGTGACCCTGTGATCAATTTGATGTTCAGAACAAGGTTTTGACTCCAGAGCCAAACCTTCCTTGAGTTTGCCAAGGTTTGATTAATCTTAATTTGTGCCTTCAAACACCAAAATTTTTTGAAGAACTTAAacttaaacacaaaGATGTTTAAAAagtaacaagacaaaaaagtcCAAATTTAAAGGCACAGTACACTGACAAACAAATGATTCTCCTTTACTACAAAGAAAGCAATGTGATGtagtggaataaaaaaaaaataataataataagagccAAAACAAGTAACATTTccacttttcttcctttttgtctttctaCAGACAAGCAAGTCTGGAGACAGGTTCCTCCTGTGGCCAATGTCTCCCATCTCCTAGAGCCAGTGATGCAGTATTCCAGGATGTGGTCAGAGAATCACAGGTGTTAATGTACTGTAGAGTTCTTGAATGCTACACAGGGTTTATAGCCTGGCTTAATTACATGTGGTTTCCATTCAGTGAGTTTGGTGTGGCGGCCCACTGATCATGGGGAGTGGAAAGGTGCGTGTGTGGTTAACAAGTTAGTTTCCCCACCAGTCCACCTGAGAGTAGTTTCCACCATAACCATCACTGTTGTAGAAATTTCCAAATCCCCTTAGCACCACCAAATCCGCGGTTGCCACCATGGCCACCAGCATTACGACTGCCACGACTCCCAAAGCCTCCGTTAGTGGTGTTGCTGCTGGTTTGACGGTAATCTCTGGCTCCAAAGCCCCCAGAGAACCTCTTTGCGCGGCCACGGTTGCTACCCTTGTGCTGATGCTCATAAGCCAAGCTTTCCAGCCAGGATggcacttcctgtttggccTCCACCAGGATGTCCAGGAGGTCTTTTGTAATGTTGCCATTCTTGTCGTTAAAGAATGAGGTGGCAAGACCAAGATTTCCCACACGACCCGTACGGCCTATGCGATGAACATACTCCTCAATGTCACTGGGCAGGTCGAAGTTGATGACATGTTTCACATTGCAGATGTCTAGACCACGTGCAGCTACCTGCGTGACAAAGAAAATGGCTCAGAAGtagaaaatacaataatatacttTCACTCTATGataaggaaaataaatgcaaataaagtaAAAGGAAAAAGCATACAGCAGTGGCAACCAGGATTGGGCATCTTCCAGAGCGGAACTGATGGAGTGCCTCCTCACGGTCTCTCTGTGAACGGTCACCATGGATACTGGTGCAGGCATAGCCTTCACGGTACAGAAAGTCCTCGAGCGCATCAGCACCCTTCTTGGTTTCCACAAACACCAGAGTCAGAGAGTCTTTGCCTGTTTCTCACTGTTTTCTCCAGTATTGTCCTGAACCTCGCCTGGTATGACTTTGGATAAAACCAGATCTCACGATAAGCTTTATGCATTCCTACGACCCTGAACAGTTTTTCGATTTACACTATAGATGATTAAACGCTTGGGAAAATAGAGAAAGACATAATACTCCTTAGTTTCTTcaatttaaactatttaaagaCTGTAGCATTGCTGAATTTTGTACATATCATTACAATAGGGAGCTGACGTAAGGAGCTGTTCTAATCTCAGTGACCTGTTAACTTCATTATATAAAAGACAGTTATATAGTTAGAAATACTTCAATTACCTGTGGCATTCAGAAGGTCAAGCAAGAAGGATCTTTTATCACTCTCCTCAACCCAAACCACTTTCTGGGTAATGTTCTCAGAGGTAGAGCCCACACGGCCCACAGCCAAGAAGATGTAATCTTCCAGGAAGTCACGTGC

Function

GO: NA

KEGG: NA

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU25449 lncRNA downstream 11341 4111282 ~ 4111654 (-) True G21341
TU25521 lncRNA downstream 45168 4077128 ~ 4077827 (-) True G21400
XR_004579415.1 lncRNA downstream 60586 4044564 ~ 4062409 (-) True LOC113545971
XR_004579416.1 lncRNA downstream 74777 4044564 ~ 4048218 (-) False LOC113545971
TU25498 lncRNA downstream 113655 4009131 ~ 4009340 (-) True G21382
TU25539 lncRNA upstream 18892 4146736 ~ 4153896 (-) True G21417
TU25534 lncRNA upstream 41158 4169002 ~ 4244436 (-) True G21413
TU25544 lncRNA upstream 64159 4192003 ~ 4232095 (-) True G21422
TU25540 lncRNA upstream 117913 4245757 ~ 4255362 (-) True LOC113545816
XR_003404661.2 lncRNA upstream 121598 4249442 ~ 4255192 (-) False LOC113545816
XM_026945639.2 mRNA downstream 83711 4034071 ~ 4039284 (-) True cldn10a
XM_026945452.2 mRNA downstream 97017 4023790 ~ 4025978 (-) True si:busm1-52i16.2
XM_026945608.2 mRNA downstream 114418 4004622 ~ 4008577 (-) False si:ch211-181l5.2
XM_026945607.2 mRNA downstream 114418 4004622 ~ 4008577 (-) True si:ch211-181l5.2
XM_034314254.1 mRNA downstream 164177 3938000 ~ 3958818 (-) False stx16
XM_026945430.2 mRNA upstream 231276 4359120 ~ 4365171 (-) True prelid3b
XM_034310026.1 mRNA upstream 231276 4359120 ~ 4365128 (-) False prelid3b
XM_026945646.2 mRNA upstream 348008 4475852 ~ 4483914 (-) True LOC113545959
XM_026945449.2 mRNA upstream 462540 4590384 ~ 4618467 (-) True igfbp2a
XM_026945422.2 mRNA upstream 589566 4717410 ~ 4719627 (-) True inha
XR_004579840.1 other downstream 345007 3750018 ~ 3777988 (-) True rab22a
XR_004580246.1 other downstream 386109 3717715 ~ 3736886 (-) False npepl1
trnaf-gaa_13 other downstream 1085639 3037284 ~ 3037356 (-) True trnaf-gaa_13
TU24006 other downstream 2300433 1812759 ~ 1822562 (-) False slc9a7
TU23548 other downstream 3085421 1028859 ~ 1037574 (-) False slc48a1b
TU25557 other upstream 128824 4256668 ~ 4257087 (-) True G21434
trnaf-gaa_14 other upstream 204255 4332099 ~ 4332171 (-) True trnaf-gaa_14
XR_004577457.1 other upstream 319523 4447367 ~ 4447479 (-) True LOC117596284
XR_004577458.1 other upstream 330492 4458336 ~ 4458447 (-) True LOC117596286
XR_003404665.2 other upstream 685431 4813275 ~ 4902011 (-) False obsl1a

Expression Profile


Homologous

species RNA id representative length rna type GC content exon number chromosome id location
zebrafish (Danio rerio) TCONS_00065271 True 18054 lncRNA 0.46 1 NC_007117.7 59835630 ~ 59853683 (-)
grasscarp (Ctenopharyngodon idella) TU570457 True 2294 lncRNA 0.41 2 CI01000340 19448439 ~ 19451285 (-)
mexican tetra (Astyanax mexicanus) TU148244 False 2896 lncRNA 0.41 2 NC_035909.1 8611554 ~ 8640836 (+)