RNA id: TCONS_00044811


Basic Information

Item Value
RNA id TCONS_00044811
length 2978
lncRNA type inter_gene
GC content 0.38
exon number 5
gene id XLOC_021604
representative True

Chromosome Information

Item Value
chromosome id NC_007134.7
NCBI id CM002907.2
chromosome length 46223584
location 18924470 ~ 18929002 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

tacagctgagaacaaataatagatttaaaagaccaaaaactGGCCGTTAGATatacacaaaatgtattaaatatcgtGTTTTAACTACAAGAGGGAGATTGAATCCAGCGGCAGATGCGAGATTGACTGGCCGAAGTAAAAGCTGCTGTCGGCGGGGGAGAGAATCATAAAGCTCCCGCTGACAGAGTCCGCTTTCACTGAAGCACATTGTCAAAGAAGCGctgtctttttaaataaactgccgattcgagtttaaaacaactacattctcgcctgaaatactcttaaaactacattttgtgaaacattagatgatattttttttaaacttgcggGTCTGCACAGCGGGGTATTGTCCATTGACTTTCACTTAGCAATAGCAGGCAGCAAATTTGAATTCGTGTTGTCCAATAGGATTTTTGCCCGCGCCGTGCATTCATAATGCCAGCTGATTACGTGTGACGGTTAATCTCCAGCTGTTGCACTGTTGTTCTGACGCTCTTCTCGGCGTCGATGGAGGATGGACCTGAAGGACGCAAAGAAGCTGGAATACGCTCGTAAAGACGAAGCACAGACATTTGCAGAAAATGAAGTGGACGAGGAAGCAGTAGAGTGTAATAACGTGATTGCTGCAATTGGTGAGGATGCATCATCTTTTGAGAGTAATGCGAATGTCCTGCGTATCCAGTGAAATAAGtcaTGGTGAACCTGACTGAATGCATTCATCAACCATCTCCAACCAAGTCAGAGCTTCAAGGACAGCTTGTGCTAAAGGTGCCTGAGCTTGATTAAGAAAAAAAGCATCTCCACTGGCCAAAGTCTACAAAAAAGCAAGAGAATAGAAGTTTGCAGATGATCTAACAGggtgtcacagtggcgcagtgggtagcatgatcgcctcacatcaagaaggttgctggtttgagactcggctgggtcagttggcatttctgtgtggagtttgcatgttgtccccatgtttgtgtgggtttcctccgggtgctccggtttcctcgacaagtccaaagacatgcagtacagatgaattgggtaagctaatttggccatagtgtgtgaataagtgtgtatgggtgttttccagtgatgggttgcagctagaaggacatccgctgtgtaaaacgcatgctggatatgttggcggttcattccgctgtggcgaccccagattaataaagggactaagccgaaaataaaataaatggatggatgattttattttgcaatagatTCAGACTTTCGTGCAGCTCTAATTCTGCTCCCCCATATCTTTAAAGAGAAAGATGATTGCTTACAGTAATTACACTGGAAGAGGTTTGGGTACTGTTGGTTAAACACTTTGTAATACTCTGATAGATGTTATGCAGTTCTGACagattttacattgtttattgatgtcctttactttttcttttcacagtgggatgatgatgatgctccATACCCAACTCTACAGATGGCTGAAAGTCCGTTTTAGAGGCATTATTACATCCTTCGCTGTTTACTGTGTTTCAACTTGGCTTATCCACGctacataaagaatgcaaaggATGAACATCAGCAACTCCCCAAGATGGAACAACAATTTAAATTTGAACATCAGCAACGGTGTGAAGATGGAAATCCAAAATTACAAGAAAAATCAGTGCAGCTGTCCGAGAGCACTGGTATTGCTGGATCTGCATCAAACAGCAATGCTTGGATCTTTGCATTTACTTTGGTGCATGCGTTTCGAGTCTGTGCATCAGTAATTTAAGACTAGCAGCTATAGACATTTCAATAACATTGCCCAAATCAACTGAGAAGCACAAGATGAAACAATACTAAGAATTTTCTCTGCCCAACATCCTTGACGAGATTGACACATTCAGGTGTTCAAATTGAACTGTTATCGTGTGCATGTGAGACCGCTAATGGAGAAGAAATTACACTTTcttaatgaaatacattttaaatgtcaatactGCACTGGTTTCTGTGTAGCAAGTTTTTAATTCTGCTGTTGTATGATTCATATTTCCATGCAAATACAGTAAGAGTTTGACTTTGAATGGGGTGTTATAAACCAAGACAGATGGACTTTCAGGCTCTTGAAACATACTCTGCTGATAAActgtttaagaatgtttagaaattTCAAATCAAATGTGTAAAACTTTGATCAAAAGtgtttttgagatctaaaatgaTTATGGGTATACAGTAAGTGACATGTTTTAATGTACTGTATGGAAAAAGATTGCTTTGAGATTCTTGATGCTTTTAGAAAATGTAGAGTGCAGTGCACTaacaaaaatgtactttattaGGTCCACTGTTGTTTTAGAAAAATGACTTTGTTACATTGGTAAAAATGCTCAGTGAAATGGGATGCactgatgttaaaaaaaataatattaagtttttttgctgtttcataaaatgtttaagcagctattttttaagtttatgcaTCTGGTATGACTTTGTGATAGTTTAAAACTTTCATCTTCTAAAAAGGTGACAATGTTATTGTTTTGAATCTTTCAATGTTTGTTTGTGATACATTGTTAcattttaatgtcttttaaaatgatgtaatgtttaaacattcatcctgtaaaaatgttgatatttaatatgtttaataaatttgataaatgaaatttaatgtgTATGGAGTACAAATCTGAAATGAAAGGGTACAAAATTCATCCCTATGGAGGAGAAATTGTACCTTTTTTAAAGGTACATTATTGTACCATAGCCCAAGTAAGGTACAAATTAGTCAGCAGAGGTACATATTTGACCCATGAAGGTACATACTGctagggtacaaatatgtacccatGTGAAAGGGTACAACAGGTGTACCCTTgagggtactgccccagtgacaagccattgtaccccaaaaggtacaaattttgcacattttttctgacagtgtaccATAGGCTATATAACCACTGACTTGTGAG

Function

GO:

id name namespace
GO:0007178 transmembrane receptor protein serine/threonine kinase signaling pathway biological_process
GO:0001704 formation of primary germ layer biological_process
GO:0001706 endoderm formation 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:0035239 tube 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:0072359 circulatory system development biological_process
GO:0018130 heterocycle biosynthetic process biological_process
GO:0006351 transcription, DNA-templated biological_process
GO:0007507 heart development biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0043009 chordate embryonic development biological_process
GO:0051171 regulation of nitrogen compound metabolic process biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0003154 BMP signaling pathway involved in determination of left/right symmetry biological_process
GO:0035295 tube development biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:1901576 organic substance biosynthetic process 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:0035050 embryonic heart tube development biological_process
GO:0031326 regulation of cellular biosynthetic process biological_process
GO:0048562 embryonic organ morphogenesis biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:0048568 embryonic organ development biological_process
GO:0030509 BMP signaling pathway biological_process
GO:0090092 regulation of transmembrane receptor protein serine/threonine kinase signaling pathway biological_process
GO:1903224 regulation of endodermal cell differentiation biological_process
GO:0010453 regulation of cell fate commitment biological_process
GO:0051252 regulation of RNA metabolic process biological_process
GO:1903506 regulation of nucleic acid-templated transcription biological_process
GO:1901362 organic cyclic compound biosynthetic process biological_process
GO:0010467 gene expression biological_process
GO:0010468 regulation of gene expression biological_process
GO:0010470 regulation of gastrulation biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0001570 vasculogenesis biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0007369 gastrulation biological_process
GO:1900094 regulation of transcription from RNA polymerase II promoter involved in determination of left/right symmetry biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0043170 macromolecule metabolic process biological_process
GO:0003002 regionalization biological_process
GO:0007389 pattern specification process biological_process
GO:0050789 regulation of biological process biological_process
GO:0061312 BMP signaling pathway involved in heart development biological_process
GO:1901166 neural crest cell migration involved in autonomic nervous system development biological_process
GO:1903045 neural crest cell migration involved in sympathetic nervous system development 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:0032774 RNA biosynthetic process biological_process
GO:0019438 aromatic compound biosynthetic process biological_process
GO:0007417 central nervous system development biological_process
GO:0010556 regulation of macromolecule biosynthetic process biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0060029 convergent extension involved in organogenesis biological_process
GO:0003303 BMP signaling pathway involved in heart jogging 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:0072045 convergent extension involved in nephron morphogenesis biological_process
GO:0042663 regulation of endodermal cell fate specification biological_process
GO:0071772 response to BMP biological_process
GO:0071773 cellular response to BMP stimulus biological_process
GO:1901213 regulation of transcription from RNA polymerase II promoter involved in heart development biological_process
GO:0009790 embryo development biological_process
GO:0009792 embryo development ending in birth or egg hatching biological_process
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003690 double-stranded DNA 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:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific 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_00042874 lncRNA upstream 232988 18688354 ~ 18691482 (+) False XLOC_021600
TCONS_00042876 lncRNA upstream 232988 18688725 ~ 18691482 (+) True XLOC_021600
TCONS_00044809 lncRNA upstream 788176 18134562 ~ 18136294 (+) False XLOC_021597
TCONS_00044810 lncRNA upstream 788176 18134759 ~ 18136294 (+) False XLOC_021597
TCONS_00044670 lncRNA upstream 788302 18135571 ~ 18136168 (+) True XLOC_021597
TCONS_00042882 lncRNA downstream 122483 19051485 ~ 19066987 (+) True XLOC_021606
TCONS_00042883 lncRNA downstream 176544 19105546 ~ 19119441 (+) False XLOC_021607
TCONS_00042886 lncRNA downstream 248889 19177891 ~ 19180438 (+) False XLOC_021608
TCONS_00042889 lncRNA downstream 248889 19177891 ~ 19182388 (+) False XLOC_021608
TCONS_00042888 lncRNA downstream 248892 19177894 ~ 19182388 (+) False XLOC_021608
TCONS_00042880 mRNA upstream 129909 18779043 ~ 18794561 (+) True XLOC_021603
TCONS_00042877 mRNA upstream 167392 18722715 ~ 18757078 (+) False XLOC_021601
TCONS_00042878 mRNA upstream 170031 18722915 ~ 18754439 (+) True XLOC_021601
TCONS_00042873 mRNA upstream 381111 18527235 ~ 18543359 (+) True XLOC_021599
TCONS_00042871 mRNA upstream 381112 18527028 ~ 18543358 (+) False XLOC_021599
TCONS_00042881 mRNA downstream 15386 18944388 ~ 18951148 (+) True XLOC_021605
TCONS_00042884 mRNA downstream 177146 19106148 ~ 19119443 (+) False XLOC_021607
TCONS_00042885 mRNA downstream 177186 19106188 ~ 19118600 (+) True XLOC_021607
TCONS_00042891 mRNA downstream 253817 19182819 ~ 19187816 (+) True XLOC_021609
TCONS_00042892 mRNA downstream 269242 19198244 ~ 19201328 (+) False XLOC_021610
TCONS_00042879 other upstream 193071 18731322 ~ 18731399 (+) True XLOC_021602
TCONS_00042875 other upstream 232988 18688357 ~ 18691482 (+) False XLOC_021600
TCONS_00042869 other upstream 635269 18289074 ~ 18289201 (+) True XLOC_021598
TCONS_00042854 other upstream 1050323 17874072 ~ 17874147 (+) True XLOC_021587
TCONS_00042853 other upstream 1050872 17873526 ~ 17873598 (+) True XLOC_021588
TCONS_00042887 other downstream 248889 19177891 ~ 19182388 (+) False XLOC_021608
TCONS_00042896 other downstream 288526 19217528 ~ 19218940 (+) True XLOC_021613
TCONS_00042898 other downstream 631072 19560074 ~ 19577246 (+) False XLOC_021615
TCONS_00042916 other downstream 866436 19795438 ~ 19799039 (+) False XLOC_021623
TCONS_00042917 other downstream 872134 19801136 ~ 19808251 (+) True XLOC_021623

Expression Profile

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