RNA id: TCONS_00061939


Basic Information

Item Value
RNA id TCONS_00061939
length 3327
lncRNA type inter_gene
GC content 0.36
exon number 1
gene id XLOC_030861
representative False

Chromosome Information

Item Value
chromosome id NC_007116.7
NCBI id CM002889.2
chromosome length 72500376
location 10488937 ~ 10500797 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

attaaattatttttaatcggTTTTAAGTGAATTAGATGTGTTTTAAAccaatctaaattaattaattaaagtctaTTAGAAAAAATTATGTTAGCTTTGTGCGCATGCGCATTATGTTCCGTTGCCTCGGCGCCAAAGCCCAAAGGAAGTTTTACAGAATCCAGTCAGATTGAAGCAAGACGCCAGAGCCGGAGTTTTGTACATCCATTTGCACAGTAAGTCACATTTTATATTGTACCAGActgtttattacataaaaaacTTTGTGGGTAACATAGACGCATAAAATGGTCTCTCGTTCGGACTGTCTATTTTGGTCGTTTTTAAATTTCACGGCGACCAGCCGTCGAGCGCGCTCGCAAGTTAAGCTAACAGTTAACGTTACACACGGTTTGACAAATCTCGCTTTTATGTCGCAGAATATATTAAAGATTCTTTTTAGCAAGAATGTAGTCATGTAGACTTGAGGCTATTTGTAGGCTATTTTCAAGAGAATAAGCATTTTCTTTGGTGTGACGACAGTGTCCGTGATCCGCCATTCCAAACGAAAAAAGCTTCGTTGCTAACGTTAGCTCAGTCCTTTGTGAATTTACCGTGGCTTTTACTATGGTTAACATTAAACATGCGTTTAGATAGTTGTGAACGGACAGTACCATACTGATTTTGTTATAGAACGATTTGGTCTGGCGTTAGGGCACTACTGACTGTCTTAGGAGGTTGTCGAATGTGTGCCCATACTGGCGTAACATTAACTTTTAACGTAAAGGGCGTCCATTTAtacagttctttattttttttttacgtgagATGCTGTAATTATGTCTTTGGGTTATAATGCTCTTAATGGGCTAACTTATATTCACAGCAAGTGTTTATCAGCCACCGATAAACGTCCAGCGCAAGGTTaacttaatgtgactttttccatATTCATAAAGTGCCTTTTACATCAACGATAAtgtaatttaacaaaaataatattctttAAATAAGCTGAAGCAATCCTTTAGTTGTTCAAACGTAAAACACATGCAGACGAGTGCTAAAACTTCATGGAAAATATTGTGGTTAAAATAAATTgacatatttttaagacatggcGTTGaagaatggaatttaatgcagtgctttgactggtctgagacccactttatatcgtatcaatcaggcagtgacgattatcttaatcatattaatcaCGTTCAGCAATTTGTTCAATAAGTAATTTATCTTAATGTTTCCTAATATAATTAATCGGTAAACAATATGTTGATTAAGAAGTTGGTCATGTTGTAACTTGTGCTGAATTTTGAACCTAAATGATAATCATGTGCTTCCTTTCATTTGAGGTACTGTACAACAAGTTTCCTTTGCTGAGTTCCTTGGTCAGGGGTTAAACACATTTTCTGTCCAGTACTGCAGTTGGAATTTTCCATCAacatttttatggtaagtaactgCAAAACATTTATTACTACACATTACAGTAAATAGTTTCTTAACTGAATATGTTGCTCTGAAAAATCTAAATAGTCCCAAAAAaggaaatttactcactattcactCACCATGTTTccatggttccaaacctttgagtttcttttatctgttgaacacaagacaaaatattttgaagagtgttagaaaccagtaatcattgacattcatagtaggaaaaacatattatggaagtcaatggttaccggttttcatcatttttcaaatgatcttatgttgtgtttatcagaacaaagaaactcaaacaggtttgtgacaagtgaagaatAACTAAATGTTATTGTTGCTTCCCTAGTTTTCACAGTACTAGGGTGCAGTAAGAGCACAAACACAGAGTTCAACTTTGATTCAACTCCGTGATTCTCTCAAGAGAGCCGACCAAAATGTTTGACCTGCCATAAAATGATTCGACTATCTGCCGACCAAGAGAGGTTATTCACCTTTTTTTTCCTCCTGTACATTGCATCAACACAGCACAGCAAATATCAAAGttgaaatttaatttgattcaaagaAGAGTCGCATCAGAATTTGGCTCAAAATTGCACAATGCACATTCGGCCTTAAGCCTGGTttgtacttctgcgttgagtgattggcgtgacctaCGGCGCCTGCCCTGCGTGCAGCTGAGCACTTATACTTgtgcgcgctgtttgtgttgttctACAATAACACTTACAAAAGCAGTAGGTTTATATGTTCTCTCTGTATGGAGTTTCTTCGCttgggttttgttttttctgaacactaccttaatgaACAAGAagataaaactcgctcattctgaggcGGGAGCCGGCAgtcatgcaacaactttaatcataaggtaaacacaaagcaacagttTCCACCTGGAGCTATTTCATgggactctacacttgtaaacactcgctccaatgggTTGGCGTGGCTCTCAACCCCGCCCACACACGTAAGCGCTACCAAGCCCACTAATAGAGCGTGCGCTACGtgttgttgcgatgtgtagttacatttttggagagatgCGCCACGGCAAGGGCTATTCGACTGCGCGCAGGCTGCGCCGCACCATACACGTGCATTtgatgtaaaggctgatttatacttctgcatgtcTTTATCTTGGCTGAACATGGTAAATTACAAGGTAGTcaaaaaaagaaatcactttaaatgtagtgtaactaaacaaactattcacaagtaaacagtcagttgattaaataaatttgagtatcattataaatgtaatatacatgTAAGGGACAATCGTCAGATTTAGGTGTGTTAAAGGATAAGTGCACAACATCGAGGCAaagtttaatgtttagattattactGCAAGTTgaaatttaatatagttttaatttctaaatataacattttaaaaataaatatataggctatgtTCTGAATAATGCTCATGTCTATGCTTATCATGCCACAAACATACTTATATTCTATGTATTTGACGATGCAGTCaatgcatgcactgaaaaaaatatgcttATAGGCTACCTTTACCTGCAGGTTTCGCTAGCTGGGCAAAACTTAGATAGGCTATTAATAATGGatatacattaaatatgtataattttatttgtgaaagcaagagagaaACTTGTGGGAGTGCTGTAATAAAGGAGTCTCAAATGACTAACAGTTGTACATTACGGTAACGTGTTTTATTCCGGACATGGCATATGACATAAATAATCgataacatttgagctggtttcagttattaattctttttatttttaaaaatatatttatttaacaggtggcgcagtgggaagtgctctcacctcacagcaagaagat

Function

GO:

id name namespace
GO:0001704 formation of primary germ layer biological_process
GO:0048729 tissue morphogenesis biological_process
GO:0001706 endoderm formation biological_process
GO:0001707 mesoderm formation biological_process
GO:0001708 cell fate specification biological_process
GO:0045995 regulation of embryonic development biological_process
GO:0019219 regulation of nucleobase-containing compound metabolic process biological_process
GO:0001711 endodermal cell fate commitment biological_process
GO:0019222 regulation of metabolic process biological_process
GO:0001714 endodermal cell fate specification biological_process
GO:0016070 RNA metabolic process biological_process
GO:0022603 regulation of anatomical structure morphogenesis biological_process
GO:0007492 endoderm development biological_process
GO:0007498 mesoderm development biological_process
GO:0080090 regulation of primary metabolic process biological_process
GO:0002009 morphogenesis of an epithelium biological_process
GO:0006351 transcription, DNA-templated biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0001756 somitogenesis biological_process
GO:0001757 somite specification biological_process
GO:0043011 myeloid dendritic cell differentiation biological_process
GO:0051171 regulation of nitrogen compound metabolic process biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:0036342 post-anal tail morphogenesis biological_process
GO:0060914 heart formation biological_process
GO:0003401 axis elongation biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0001773 myeloid dendritic cell activation biological_process
GO:0045165 cell fate commitment biological_process
GO:0009887 animal organ morphogenesis biological_process
GO:0009888 tissue development biological_process
GO:0009889 regulation of biosynthetic process biological_process
GO:0097659 nucleic acid-templated transcription biological_process
GO:0031323 regulation of cellular metabolic process biological_process
GO:0060429 epithelium development biological_process
GO:0031326 regulation of cellular biosynthetic process biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:1903224 regulation of endodermal cell differentiation biological_process
GO:0009653 anatomical structure morphogenesis biological_process
GO:0010453 regulation of cell fate commitment biological_process
GO:0060974 cell migration involved in heart formation biological_process
GO:0060975 cardioblast migration to the midline involved in heart field formation biological_process
GO:0048856 anatomical structure development 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:1903506 regulation of nucleic acid-templated transcription biological_process
GO:0048598 embryonic morphogenesis biological_process
GO:0010467 gene expression biological_process
GO:0010468 regulation of gene expression biological_process
GO:0048869 cellular developmental process biological_process
GO:0010470 regulation of gastrulation biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0048332 mesoderm morphogenesis biological_process
GO:0007369 gastrulation biological_process
GO:0048645 animal organ formation biological_process
GO:0048646 anatomical structure formation involved in morphogenesis biological_process
GO:0007379 segment specification biological_process
GO:0003260 cardioblast migration biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0003002 regionalization biological_process
GO:0007389 pattern specification process biological_process
GO:0050793 regulation of developmental process biological_process
GO:0060795 cell fate commitment involved in formation of primary germ layer biological_process
GO:2001141 regulation of RNA biosynthetic process biological_process
GO:0032502 developmental process biological_process
GO:0032774 RNA biosynthetic process biological_process
GO:0010556 regulation of macromolecule biosynthetic process biological_process
GO:0060026 convergent extension biological_process
GO:0060028 convergent extension involved in axis elongation biological_process
GO:0060029 convergent extension involved in organogenesis biological_process
GO:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:0035987 endodermal cell differentiation biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0042659 regulation of cell fate specification biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0042663 regulation of endodermal cell fate specification biological_process
GO:0003318 cell migration to the midline involved in heart development biological_process
GO:0097028 dendritic cell differentiation biological_process
GO:0009790 embryo development biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003690 double-stranded DNA binding molecular_function
GO:0097159 organic cyclic compound binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000976 transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000977 RNA polymerase II transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function
GO:1901363 heterocyclic compound binding molecular_function
GO:0000987 cis-regulatory region sequence-specific DNA binding molecular_function
GO:0140110 transcription regulator activity molecular_function
GO:0001067 regulatory region nucleic acid binding molecular_function
GO:1990837 sequence-specific double-stranded DNA binding molecular_function

KEGG:

id description
ko03230 Viral genome structure
ko05164 Influenza A
ko03200 Viral proteins

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00061521 lncRNA downstream 1645 10488994 ~ 10495826 (-) False XLOC_030861
TCONS_00061938 lncRNA downstream 279865 10215514 ~ 10217606 (-) True XLOC_030859
TCONS_00061520 lncRNA downstream 615067 9880188 ~ 9882404 (-) True XLOC_030853
TCONS_00061518 lncRNA downstream 1350694 9144367 ~ 9146777 (-) False XLOC_030844
TCONS_00061519 lncRNA downstream 1350694 9144457 ~ 9146777 (-) True XLOC_030844
TCONS_00061940 lncRNA upstream 435940 10936737 ~ 10946240 (-) False XLOC_030864
TCONS_00061942 lncRNA upstream 435940 10936737 ~ 10946321 (-) False XLOC_030864
TCONS_00061943 lncRNA upstream 435940 10936737 ~ 10946321 (-) False XLOC_030864
TCONS_00061941 lncRNA upstream 435940 10936737 ~ 10946321 (-) False XLOC_030864
TCONS_00061522 lncRNA upstream 467002 10967799 ~ 10968681 (-) False XLOC_030865
TCONS_00060009 mRNA downstream 258392 10232193 ~ 10239079 (-) False XLOC_030860
TCONS_00060010 mRNA downstream 260872 10233011 ~ 10236599 (-) True XLOC_030860
TCONS_00060008 mRNA downstream 415227 10055980 ~ 10082244 (-) True XLOC_030858
TCONS_00060007 mRNA downstream 484500 10011922 ~ 10012971 (-) True XLOC_030857
TCONS_00060006 mRNA downstream 489574 10003458 ~ 10007897 (-) True XLOC_030856
TCONS_00060015 mRNA upstream 264814 10765611 ~ 10946379 (-) False XLOC_030864
TCONS_00060016 mRNA upstream 265750 10766547 ~ 10768258 (-) False XLOC_030864
TCONS_00060017 mRNA upstream 444956 10945753 ~ 10946232 (-) True XLOC_030864
TCONS_00060018 mRNA upstream 741494 11242291 ~ 11271209 (-) True XLOC_030867
TCONS_00060021 mRNA upstream 1001781 11502578 ~ 11573490 (-) True XLOC_030870
TCONS_00059993 other downstream 1291580 9203723 ~ 9205891 (-) False XLOC_030847
TCONS_00059992 other downstream 1310565 9179822 ~ 9186906 (-) False XLOC_030847
TCONS_00059990 other downstream 1318035 9173538 ~ 9179436 (-) True XLOC_030846
TCONS_00059989 other downstream 1326937 9166395 ~ 9170534 (-) True XLOC_030845
TCONS_00059982 other downstream 1774428 8722928 ~ 8723043 (-) True XLOC_030836
TCONS_00060013 other upstream 7029 10507826 ~ 10508814 (-) True XLOC_030862
TCONS_00060014 other upstream 220097 10720894 ~ 10724665 (-) True XLOC_030863
TCONS_00060031 other upstream 1481567 11982364 ~ 12031921 (-) False XLOC_030876
TCONS_00060039 other upstream 1692101 12192898 ~ 12193014 (-) True XLOC_030880
TCONS_00060044 other upstream 1852924 12353721 ~ 12372897 (-) False XLOC_030879

Expression Profile

//