RNA id: TCONS_00038668


Basic Information

Item Value
RNA id TCONS_00038668
length 6461
lncRNA type retained_intron
GC content 0.40
exon number 20
gene id XLOC_019641
representative False

Chromosome Information

Item Value
chromosome id NC_007132.7
NCBI id CM002905.2
chromosome length 45934066
location 26665014 ~ 26677834 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ATTTCTGGCACGAAACACGGATAAGAAAGCATTTCTTCGGATCTTTCAGCCGTTCAAAGTGTTATCTTAACGCCTCTCTGTTTGGTGTTTTTTATAAAACTACTAAAATAACACCTGGGAGTCGTATATATCTTACATTTAAAGTAGCGTGAAGCCTTCTGAAAAGATGGCGACAGCAGACGACTCGCGCTACTATAATGAGCATGATGACCGTGTTGGTGGACCAAAGCATCGCAACCGTAAAGGCAGAGGCCCTTTCAGAGCCCCCTTGTACAGTGATCAGATGTCTCGTCCAAGGCATCGAGGAGGTCACAGCgggggaggtggaggaggaggaggtggcgGCCCTGGCCCCCGGTCAAGACTTCATGATGATGATGGAGACGTGACCATGTCTGACATCCCTCAAGACAGCTCGCAGCGCAGATATAATCCATATGGCAGACAACAAAACCGTCGTGATGACCGCAATCGCAAAGGTGGAAGAGGAGGTGGTGGAAATGACGATAGAGGTGGCAACCGATTTGGAggcagaggaggaggagggggcgGCGGTGGAGGACCATCTGATGGAAGAAGCAAGAACTGGTTTAAAATGACGATTCCTTATGGGAAGAAATACGATAAAGACTGGCTTCTTTCTTCACTTCAGAGTGTCTGTCCCATACCATTCCATGCCATTCAATATCATCTGGATGGGAACAGGGCCCAGTTTTATGTTGAAGACTCTACAACCGCTAACGCTATATTTAAAGTTTCACGTAGAATAACGGACAAAGATGGATATAAGGTGGCTGTTATTATGAACAGCTGCCCCCCACCCACTTTAATTCACTCTGATCTGAAGCCTGCAGATCTTGAGCATTTGAAGCAATGCATGGCCAAACGATTTGATGGATCACAGCAGGCTCTTGACCTGAACAACATCAGGGTCGATCCAGATTTGGTTTCACAAAATATTGAGGTTACCTTGAACCGGAAAAACTCCATGTGTGCGGTCATTAAGATTATTGAGGAAAACATTCCTGAGCTGGTTTGTCTAAACCTAAGTAACAACCGGTTATTCAGGCTGGATGACCTGGTGGATATTATCCACAAAGTTCCCAACCTAAAAATTCTCAATCTGTCACACAATGAGCTGAAGACAGAAAGAGAACTTGATAAGCTAAAGGGTTTGAAGCTGGTGGATCTCTCACTGGAGGGAAATCCTTTGTGTCACCATTTCAAGATCCATGCTGACTACATCAGGTTAGTCTTACGTGCCATTTATTGTCTGGTGAAGATTAAGCCAGAAAAATACTATACACAAGTACATCGATGCCAACACTTACGAACATGTGCTCTTACATTACTTAACAGAAACAAGCCTCGATACTTTAATACCTTAAACTGTAGAGGCTGATCTGagagagaaacatttaaaatttgctAAGATTGCAACACATACTTATGAATTGCAGTTTAAACTATTCGAGAACACAATCTTGCACAGTTAGTGCGTCTGCGTTCAAGTACTTGCGTAGAGTGTGTTTCAGGTCTGAAATAGAAtagttgtgtgtttgtgcactcgtacagatgaatgaatgaatgcatgcctATACATACACCACCTGTAAGAACAACACATAACAAATAAAGGCCTTGGTGTACTTCAGACGAAGGTCTTTTTCATTCTTGGTTTGAAGTATACCAGAGCCGTAATGCTGGAAGGGGGTGGTTGTGTTTTGTAAAATACACCCAAAAAGCATGTCAGTCACTAACTCTATTATAGACAACAGACGAATGTGTTGTGTATggaacattttaacattcatcagttgaatattgcattttattattattattttttcttttctttctggaTGAACCACTGCCCACCAAGGCAGAGATAAAGAAAATGTCCTTTTTTATCATTGCAGTTGTTTTTGTAATCATTGCATGTTATAAAACGGAAATCATAATTCATAAGTCCCACCCCTTTGTACTTCTGGTCATTCAGCCCTGTCTGTAACGTGCAGGTGTTTTAATCCTGCAAATAATTCTTCACTACTTCAACCATCAGGCAtatgataataatattcatatGTTCACGTTCAAGTGGCAACCCAGTAAGAATaaatttttcctaatttttttttttatagacttCACACTTGCTTTGCTTCATTCTTGCTTCATTTCGATCCTATTCTCTGCCCTCACACTGTTGGCCCTGTAGCTTTTTGCACAGACGAAATGTCATCGCCTAAAATTTAAGTATATAATTCAGTTACATTACCTCATAGTTCAGTAGTCAATTCAAAAAGTTCAGCAGCTTCAACATGTGACCTCCCAGAATGCCTATGGATAAGTTTCTTAAAGGACAGAACGTACTGCTGGAAATGATGCTCTGTAAAGTACATTTGTCCTCCACCTTTCCAAAACGCCGGCACCCTCCTCCCTCCCACCCGCCCTGCACATGTGACACCTGAAGCACTGCTAGTGCTGCGTGGCCAGTGAGAGGCTGGTTAGTCAAAGACGGGTAAGATCCCAACTTTGAGCATGGGACAACCTAAGGCAGGCACAGCCGCAAAACTGGCCACAGCCAACGATTCGAAGATAAAGAAGACTGGAGTGAAGAAGACGAGATGTTCCAGAGGAGATGCTGCGGGTGGAGAAGGAGAGGGGAAGGTTTTTAAGAGTGACCTTGAGCCGAGCTCTGCTCCATAATGCGAGCTTTGTTGCATGGTGAATAATGAGAGGCAGTTCTCTCGCTGTTTGTGAATTCAAACTGAGGTGGAGGATAGTTGGTCAGATTGACCTTTTTCACGATCTTCGTCCTAGAGCATGTTGAAGGAAAAAATAAAGCATCAGATCTACAATCCTGCAAAGGCAAAACGCTGAGAGGAAAATACTGGAGAGGATCACAGGAACAGCTTTgaaatatttcaatttaaaaatagATTACTAATTAGATTACATGGGAAATTGTACCGTAAGCTGTCTGGGCTCAAATAAAGCTTTGATTAATTGCTTGAATAAATACCCTGCCGTTCTTAATTTTAATGGTGGGGTCCAAATTAAGTAGACCAAATAGCCCATACAGCTTTTATAGTGTATTTTACTGTTTGTATTATTATGATCTGTTCAAAAGCTCAGGGTTCAACAATTGTGACGTTCTGGTTTTATATTCATTaacttttgttaatttatttttaacaaacctTCTTTTAAACCCTCTCTTTTGGTGTTGTTTCATACTGTATGGCTGTGCGTTTGCTGTCTTATTACTGGATAATGCTTAATTTAGTACACTAGTGCCCAAAcacactttttgtgtgtgtttgtatggctGAATTTCATcagttttacttttaaatgaGAAATTCATTTATTGatcttttaacaattaaaataaattcccTCCCTTAAACTAGCAACTATGAGCACCATTTTTCTTTTGTAACTGCCATCTTGAATAGATTTCTTGAACATAGTTTTGTCATTAGTCATTCAAAACATCATTTGCaacattttaagaaaatgtttgcaacctaaaaaaaaattgtcagtgCCTGATGctgtttgataaaaataaatgagttttgCTGATAAGTAACACCAGCATGACCAGATTATAGCATTCATATATCAAACAACGTACTCTTTTTGCTAAatgtgtgccaaaaaaaaaaagcgaagcaaaataaacaaaacaaatacagacagagcgactgactgactgatggtGTGAATGTTCACCAAACTCTACCCCTCACAACACCCCACTGCCCCCATCCTTTGCCAGCCTGCGTGTGTCTGTTCGACCTGTAGGGGCACCAGTGGTGAGTATTGTGATTGGGTAAGTACCATGTGCCGGGGGCGGGAGGGAGCTGAAACAAGGCTGTGATTGGCTCATTGGTGCTCTGACTCAAACGcttgtgtttttgtcatttttattagtaCAAGACATACTTGATGGGTTATTGAGGAAATCTTGAGCTATTTGTTCAACTTGAAAGGAATGGTTTATGTTTGTTGGTTAAAGACACTACTGTTGAAATGTTTGAGGTTAGTagtttaaaaaattatgtaaatgtcATAGTAAAGacttaaattaataatttctatTTTGAATAAATGCCTCTTGTTGCTTTCTGATCATCAAGACTTTCAGTAAAAATATCAAatgttttttgttaatgataaaaCTTTCTTGAGTAGCAAATTGGcatgttatttattaagtattgtGTGAcactagctacgtttccatccaaaaatgcaaattaaacttATGTGCATAAGAAGCGTTTTCATCCAAGtggtcaaagagaacaaaattcagccacttcctgattaactgacgccaaatatcaacagtaaaaactaaatttgctgcaggataagctgtgtgaatcttttctttatataataaatgaccTCAGAAGACAATGTAACACGCAATGAATGTGTGGTGTTTGTTGGCgtcagacgtggagcacagatgTTCTTGCCAATTATTgaggtaattaataatttaataacactaaaactgttgttttagaatgactaaaagaacagttcagatgttttacaatgtgctcagcctgctggtttgtccattcacaaacatttttataatcacattttcttataacaaaatcacatgacactttatttttatttttaattaatactttaatttgttcagtaaaagtgtttccatcgtagtttatgcgcatcttgtcaaataaaaagtttatcctactctgttatacttgtatgtttttttatgcacattttcaaaatgtatgcacagcTTGGCGTTTCTATCAACTgatttttgtgtatatattttttatgcacatatccaaaatccacataaaaataggtgaacgGAAACGTAGCTACTGAAGCTTTGCCATCATTTTGCCAAAGAATATGaattttaaaatagattaaaattaaaatgttttgaagtatTTCAGTTATTGCTATTGTTTTAGTAGAAATTAATGCAGCCAAATCACACCAGCCTCATCTTTTGAATGGTAGTGTACATTAACGTCTGTGTGAAAGTTCACAGTATCACAATATCTCAAGCCTGATGGATAATTATCTGTAAGTAAATGTTTTCTCTGATTACTGAACACTTAAGATGCCCCGGCTCAAGTTTTTGGGTGTTCATGTGGGATATTTCAATGACGCATATGTGTCTCGTACTAACTCACTTTTGTTCTGTCTTTGTGATTGTTGGACAGTGCCATTCGGGAACGATTCCCCAAGCTGCTCAAACTGGATGGACATGACCTTCCACCTCCTATTGGTTTTGACTTGGATGATGGTCCATCCACTCTTCCACCTTCCAAGGCAAGCTACTTCTGCTCTGAGGAAATCAAAAACATCATCCTTTGTTTCCTGCAACAGTTTTACAACGTATATGACTCGGGAAACAGACAGCCACTGCTGGACGCCTATCATGACGGAGCCACTTTCTCCCTTAGCATTCCCTTCGTTTCCCTGAACCCCTCAAAAAGTACTTTAGGGGAGTATCAGAAAGACAGTCGCAATATCAAGCGCATGAAAGACCCTACAACACGATACCGTTTGATCAAACACACACGATTGAATGTGGTGGCTTTCCTGAATGAACTTCCCAAAACACAGCATGACATCGCCTCATTTGTCGTTGATGTCAACACCTACACTGCTACACTGTTGGCATTCACAGTCTGTGGAGTTTTCAAAGAAATGGATGGAAAGTCCAGAGAGACCTACAGAGCCTTTTCCCGGGTGTTCATTGCTGTTCCTGCAGGAAGCACTGGTCTGTGTATTGTGAATGACGAGCTGTTCGTTCGAAACGCCACAACGGAGGAGATTCGCCGCGCATTCGTCGCTCCAGCACCCACGCCATCCAGCAGTCCTGTGCCCACTCTGTCTGCCCACCAACAAGAAATGCTTGCTGCCTTCTCACTGAAATCCGGAATGAACCTTGAGTGGTCTCAAAAGTGCCTACAAGATAATGATTGGGATTTTGAAAGAGCCGCTCAGATCTTCACAGGCCTCAAGGCACAAGGAAAGATCCCAGATGTTGCGTTTGTGAAATGAGTTCATGTTGAAGCTTTTCCAGAAACCATGAGGTGCTTTTCAGATTCTGTCCTCctcgaatatttttttttcttttttgtataatTCTTGTTTTTCTGATGGAAAACGTTCTCCACAAAGGAAATAATTCGTTTACAGAGCAAAAATATGAGACAAATAAGGAAAAATAAAAGTTGAGTGAAGACAAATAGTGACTCAGGAAGACACTAAGACAATGTTTTTCCTCCTTATGTGAATAATTTCTCCCCTCACCAACTCTGCGGTTCGATGTTTCCTTAAGTTTTAAATTGTCGTGTCCAATAGGGGACAGTTGTGGCAAATAAAGTACACGTACATTGCttgtgttttgtaaaataaatattaattatgat

Function

GO:

id name namespace
GO:0019219 regulation of nucleobase-containing compound metabolic process biological_process
GO:0016070 RNA metabolic process biological_process
GO:0016071 mRNA metabolic process biological_process
GO:0000054 ribosomal subunit export from nucleus biological_process
GO:0000055 ribosomal large subunit export from nucleus biological_process
GO:0043009 chordate embryonic development biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0000375 RNA splicing, via transesterification reactions biological_process
GO:0000377 RNA splicing, via transesterification reactions with bulged adenosine as nucleophile biological_process
GO:0006396 RNA processing biological_process
GO:0006397 mRNA processing biological_process
GO:0006403 RNA localization biological_process
GO:0000398 mRNA splicing, via spliceosome biological_process
GO:0006406 mRNA export from nucleus biological_process
GO:0050657 nucleic acid transport biological_process
GO:0050658 RNA transport biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:0033750 ribosome localization biological_process
GO:0051236 establishment of RNA localization biological_process
GO:0050684 regulation of mRNA processing biological_process
GO:0051252 regulation of RNA metabolic process biological_process
GO:0006725 cellular aromatic compound metabolic process biological_process
GO:1901360 organic cyclic compound metabolic process biological_process
GO:0010467 gene expression biological_process
GO:0044237 cellular metabolic process biological_process
GO:0044238 primary metabolic process biological_process
GO:0015931 nucleobase-containing compound transport biological_process
GO:0071428 rRNA-containing ribonucleoprotein complex export from nucleus biological_process
GO:0051028 mRNA transport biological_process
GO:0071704 organic substance metabolic process biological_process
GO:0006807 nitrogen compound metabolic process biological_process
GO:1903311 regulation of mRNA metabolic process biological_process
GO:0034641 cellular nitrogen compound metabolic process biological_process
GO:0030902 hindbrain development biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0008380 RNA splicing biological_process
GO:0016973 poly(A)+ mRNA export from nucleus biological_process
GO:0009792 embryo development ending in birth or egg hatching biological_process
GO:0044424 obsolete intracellular part cellular_component
GO:0044428 obsolete nuclear part cellular_component
GO:0005622 intracellular anatomical structure cellular_component
GO:0005634 nucleus cellular_component
GO:0043226 organelle cellular_component
GO:0043227 membrane-bounded organelle cellular_component
GO:0043229 intracellular organelle cellular_component
GO:0043231 intracellular membrane-bounded organelle cellular_component
GO:0005737 cytoplasm cellular_component
GO:0003676 nucleic acid binding molecular_function
GO:0097159 organic cyclic compound binding molecular_function
GO:1901363 heterocyclic compound binding molecular_function
GO:0003723 RNA binding molecular_function
GO:0003729 mRNA binding molecular_function
GO:0036002 pre-mRNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030131-2585 Predicted to enable RNA binding activity. Acts upstream of or within mRNA transport. Predicted to be located in cytoplasm and nucleoplasm. Predicted to be active in nucleus. Orthologous to several human genes including NXF1 (nuclear RNA export factor 1).

Ensembl:

ensembl_id ENSDART00000148966

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00039652 lncRNA downstream 61373 26600961 ~ 26603641 (-) True XLOC_019640
TCONS_00039651 lncRNA downstream 143022 26520377 ~ 26521992 (-) True XLOC_019638
TCONS_00038658 lncRNA downstream 269706 26251376 ~ 26395308 (-) False XLOC_019633
TCONS_00039649 lncRNA downstream 269706 26329480 ~ 26395308 (-) False XLOC_019633
TCONS_00039650 lncRNA downstream 269712 26356032 ~ 26395302 (-) True XLOC_019633
TCONS_00039653 lncRNA upstream 143088 26820922 ~ 26824580 (-) False XLOC_019645
TCONS_00039654 lncRNA upstream 143088 26820922 ~ 26824739 (-) False XLOC_019645
TCONS_00039655 lncRNA upstream 143088 26820922 ~ 26825306 (-) True XLOC_019645
TCONS_00038678 lncRNA upstream 324775 27002609 ~ 27010789 (-) True XLOC_019647
TCONS_00039656 lncRNA upstream 510290 27188124 ~ 27191434 (-) True XLOC_019649
TCONS_00038666 mRNA downstream 106746 26555989 ~ 26558268 (-) True XLOC_019639
TCONS_00038665 mRNA downstream 144385 26514603 ~ 26520629 (-) False XLOC_019638
TCONS_00038664 mRNA downstream 169314 26493694 ~ 26495700 (-) True XLOC_019637
TCONS_00038663 mRNA downstream 174828 26485849 ~ 26490186 (-) True XLOC_019636
TCONS_00038662 mRNA downstream 181777 26408017 ~ 26483237 (-) True XLOC_019635
TCONS_00038669 mRNA upstream 650 26678484 ~ 26691959 (-) False XLOC_019642
TCONS_00038670 mRNA upstream 5487 26683321 ~ 26691959 (-) True XLOC_019642
TCONS_00038672 mRNA upstream 31967 26709801 ~ 26715270 (-) True XLOC_019644
TCONS_00038673 mRNA upstream 230793 26908627 ~ 26918901 (-) False XLOC_019646
TCONS_00038675 mRNA upstream 318442 26996276 ~ 27010796 (-) False XLOC_019647
TCONS_00038657 other downstream 494177 26152842 ~ 26170837 (-) True XLOC_019632
TCONS_00038640 other downstream 942222 25703078 ~ 25722792 (-) False XLOC_019622
TCONS_00038634 other downstream 1039831 25620405 ~ 25625183 (-) True XLOC_019619
TCONS_00038630 other downstream 1051817 25605533 ~ 25613197 (-) False XLOC_019617
TCONS_00038618 other downstream 1201650 25452590 ~ 25463364 (-) True XLOC_019612
TCONS_00038671 other upstream 23987 26701821 ~ 26701954 (-) True XLOC_019643
TCONS_00038674 other upstream 240094 26917928 ~ 26918903 (-) True XLOC_019646
TCONS_00038689 other upstream 527165 27204999 ~ 27221304 (-) False XLOC_019652
TCONS_00038698 other upstream 804315 27482149 ~ 27483038 (-) False XLOC_019657
TCONS_00038703 other upstream 806257 27484091 ~ 27488961 (-) True XLOC_019657

Expression Profile

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