RNA id: TCONS_00044852


Basic Information

Item Value
RNA id TCONS_00044852
length 3103
lncRNA type intronic
GC content 0.33
exon number 1
gene id XLOC_021806
representative True

Chromosome Information

Item Value
chromosome id NC_007134.7
NCBI id CM002907.2
chromosome length 46223584
location 32210258 ~ 32213360 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

tattttatctttattttatcattttcgaTCGCCCTCAGGAGAGTAAGTTACGATTGTAGTCCCAAAGACCAAGCTGCGGATCTAAAGGTAAAaaatacatagtttttttttttatttaacacacaAATTACAAATTTAGTACACACAGTCTTTCAAAAATTTGGGATCAGCAAGGATTGTAATTTTGTTTATAGAAGGATGCttcaattaatccaaaatacagaattaaataaatgctgaagtTAAAATAATGTGTTTCTTATTGActgaaaactaatttaattaaactgtttccaacaatgataataaattagcatttataatgatttctgaactATGGTGTGACACTTAAGACTAGAGTGATAATGTTGATAATTCAGCTTTCACATCGCATGAATAAATGATCgatttacatcaaaatataaatattactttaaatttcattaacatttcacaataatgcaactttctgtatttttattaaagtgaatgcagccttgatgagcaaAAAAAGCTAATATTGATCTCAAACGTTTGAACAACattaaaagatttataaataatataaattattattattacttttattgtaataaacttgGCTTACTGTAAAATTTTGGGATTTCTCAGTTAAAATGTTTATGGGTGAACACTCTTTCAGGTAAATTATTTCTACTTTTACAGAACTGGTTGCCTCGAGAATAAATACCACTTCTGCACCTATCGCTTAGGCCGTACAAACAGTAAATCACATTTGGGCCACACATGTTTTGAAGCAATTCTAAAAAATGCATTGAGGGATTTGGGAAGTAAAGGAATGGGTGAAAAAACTTAGTAAGTCTTGAGTTAGTTGGAGAGTGGCAGTGACAAAACCTAAAAAGGGACAATGTCAAATCAGTTCATTCTTTGttacactatataaatgtaacacaCTGAAAATAACTTTACAGTAAATATTGTAAACATACATAGTTCTACTgttcaaaacattttagattCTTCACACAAATTGagatgtttattaatatattttgattTAGTGTGCCAGTTAGAAATCTCAGTTAACATTGAATTGGTTAATGGTTTGTAATTGTCCAGTGAGATTTTTACCCTTGTGATGGCTCCAGTATTTGTATAAACTTAGGACAGGTCATATGGATAGATGACTGGATAGACAGATTTTCATATGCACAGCCACAGTGATTCTGAAATCATATAGTCTCAGCCTCAGACATCATGCCAAGCAACTTCTGATGCATATGGCACACTTTTCTGGAAACCTTTTTAAAGATCCTCAGTTGTCCTCTGATTAGTTTAAATATACATGATTTCTGTGAGTTGACAGACCACCTAGAAACAAGTCTGTGCAGATAAAATAGCTGCAATGGTTATATTGATGACAGTCCTTATTAATAAACATATAACTTTCTGAGACATTTAGTGATTTACTGCCTGCATGTCTGTGATGATGGgcatttattcatttgatttaaatgctaaataattaaaagtatccAATATTCACTGCATAAAAGCTTTAACTCACGATATTGACAAACTTGCTGGTAtgcttgtatatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtatatgtatttttttctaatggcagtGTAAATCTTCAAATATTCTGTCATTTTGGTCATTAAGATAAGAGAATGACCATTCAAAGcagcaactgttttttttatttgtggatactcacaaaaacaacaaaaccttGCTTTTATAGAACAAAGTAAACTTTCACTCACTTATCTCATCTGAGGTGATCTTTAGgtaaaaatgcttcattaaaataatgaatgaatctgAGAACAAATGCTACATACATGTCCTACAGATTTCCTGTATGTTTTGTTGACAGATCATTTAGAATATTGCTGCATCATTGTTGTAAACGTTTGaaatttctaaatgtaaaataaaaatatctaacatttctgcacacttaaacatttaaacatttatatttttttctgtgggCTCACTAAAGGTGCCAGCACAATGTTCATGTTCGATCAGGCATGGCTTGTCAACAACGGCTGTCCAAAAATATGCTGTGGGGCAAAAAGGGTTTGCACTTTGGTAAAGACTGTAGACAAAAGGGGAGGATCAAGTAGGTGAGTTAGAAATGTCAAAATtgtactaatatttttttttaagtttctttgtgtaatttatttttatttttcaggaaCAATGATCCCCATATTCCCACTTACTCAACCTCTGTGCGCTTGTACAATGTGCATTGAGGCACAAGGTTGTAGGGGTCACTGTAGTTGCCACCACTGCAAGAGTTAACGCTGTTGAGATGCCACCATGTCAGAGCCTGAGCTGCCAGTTGCCACCAGAGCTATTGCTGCCACATGCACCAGAGTTACTGTCAACAGAAAAGCTCACAAAGCCTCAACCACATTCAGACCCATTCCAGCAAAACTGCCAGAGCCCGTGGTGCTAGAGCTGGCAGATCTGCTGCTGCCATAGCCAACGCTTCCAGAGCCACTGATGCCACCAACtaagctccaggattggccacctCTGCAAAAGCCAACTAGCCTATCAGAGCCACTCTACCTATTTCTAAAGTGAGGacaatttatgctttataaatgcctaataaatgacaattaaaggctcagtgtCAAATGAACAGTACATCTTTGTAAtcctatctaaaaaataaaattactgtaaagtttaaacattgcagaataacaggagtgtcaaaatacgacataaaattggataaaaaaacaacaacaatataataatttaacaatatattatgatacaacattATAATGTTATTTAGCGAAGTTTAAACTGTACGGTAActttattttagttaagattgcaaaaatgtatttttcatttgatacagatTCATTTATGTATCTTTAAATGATAAGAAATAAATCAAGTCGTGTTTTTTCCCCTGTTTAGAagataactgagcctttaatagttatttataagggatttataaagcataaatagtcctcac

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: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:0007492 endoderm development biological_process
GO:0080090 regulation of primary metabolic process biological_process
GO:0002009 morphogenesis of an epithelium biological_process
GO:0018130 heterocycle biosynthetic process biological_process
GO:0006351 transcription, DNA-templated biological_process
GO:0008152 metabolic process biological_process
GO:0065007 biological regulation biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II 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:0030154 cell differentiation biological_process
GO:0036342 post-anal tail morphogenesis biological_process
GO:0002030 inhibitory G protein-coupled receptor phosphorylation biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0001773 myeloid dendritic cell activation 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: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: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:1901362 organic cyclic compound biosynthetic process biological_process
GO:0048598 embryonic morphogenesis biological_process
GO:0010467 gene expression biological_process
GO:0044237 cellular metabolic process biological_process
GO:0010468 regulation of gene expression biological_process
GO:0044238 primary metabolic process biological_process
GO:0048869 cellular developmental process biological_process
GO:1904323 regulation of inhibitory G protein-coupled receptor phosphorylation biological_process
GO:1904325 positive regulation of inhibitory G protein-coupled receptor phosphorylation biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0051281 positive regulation of release of sequestered calcium ion into cytosol biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0007369 gastrulation biological_process
GO:0071704 organic substance metabolic process biological_process
GO:0048646 anatomical structure formation involved in morphogenesis biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0043170 macromolecule metabolic process biological_process
GO:0010524 positive regulation of calcium ion transport into cytosol biological_process
GO:0050789 regulation of biological process biological_process
GO:0050794 regulation of cellular process biological_process
GO:0006807 nitrogen compound metabolic 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:0032774 RNA biosynthetic process biological_process
GO:1903587 regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis biological_process
GO:0034641 cellular nitrogen compound metabolic process biological_process
GO:1903589 positive regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis biological_process
GO:0019438 aromatic compound biosynthetic process biological_process
GO:0010556 regulation of macromolecule biosynthetic process biological_process
GO:0034645 cellular macromolecule biosynthetic process 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:0097028 dendritic cell differentiation biological_process
GO:0009790 embryo development biological_process
GO:0001702 gastrulation with mouth forming second biological_process
GO:0043034 costamere cellular_component
GO:0005634 nucleus cellular_component
GO:0043231 intracellular membrane-bounded organelle cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0046872 metal ion binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0060182 apelin receptor activity 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:0043169 cation binding 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_00043249 lncRNA upstream 8764 32194408 ~ 32201494 (+) True XLOC_021805
TCONS_00043238 lncRNA upstream 172039 32028625 ~ 32038219 (+) False XLOC_021802
TCONS_00043241 lncRNA upstream 172039 32034741 ~ 32038219 (+) False XLOC_021802
TCONS_00043242 lncRNA upstream 172198 32037087 ~ 32038060 (+) False XLOC_021802
TCONS_00044851 lncRNA upstream 324345 31863739 ~ 31885913 (+) True XLOC_021795
TCONS_00044853 lncRNA downstream 36996 32250356 ~ 32253077 (+) True XLOC_021807
TCONS_00044854 lncRNA downstream 179133 32392493 ~ 32418824 (+) False XLOC_021809
TCONS_00043252 lncRNA downstream 179160 32392520 ~ 32397844 (+) False XLOC_021809
TCONS_00043257 lncRNA downstream 192996 32406356 ~ 32409927 (+) False XLOC_021810
TCONS_00044855 lncRNA downstream 266970 32480330 ~ 32487726 (+) True XLOC_021812
TCONS_00043248 mRNA upstream 102650 32101361 ~ 32107608 (+) True XLOC_021804
TCONS_00043246 mRNA upstream 102799 32101202 ~ 32107459 (+) False XLOC_021804
TCONS_00043245 mRNA upstream 124319 32066168 ~ 32085939 (+) True XLOC_021803
TCONS_00043244 mRNA upstream 149373 32044410 ~ 32060885 (+) True XLOC_021802
TCONS_00043243 mRNA upstream 149375 32039386 ~ 32060883 (+) False XLOC_021802
TCONS_00043250 mRNA downstream 122511 32335871 ~ 32352179 (+) True XLOC_021808
TCONS_00043251 mRNA downstream 179101 32392461 ~ 32400994 (+) False XLOC_021809
TCONS_00043253 mRNA downstream 179182 32392542 ~ 32421886 (+) False XLOC_021809
TCONS_00043255 mRNA downstream 179252 32392612 ~ 32423348 (+) False XLOC_021809
TCONS_00043254 mRNA downstream 179252 32392612 ~ 32423348 (+) False XLOC_021809
TCONS_00043247 other upstream 102777 32101211 ~ 32107481 (+) False XLOC_021804
TCONS_00043240 other upstream 172039 32032765 ~ 32038219 (+) False XLOC_021802
TCONS_00043229 other upstream 269384 31933675 ~ 31940874 (+) True XLOC_021797
TCONS_00043223 other upstream 542715 31667429 ~ 31667543 (+) True XLOC_021793
TCONS_00043220 other upstream 776595 31433579 ~ 31433663 (+) True XLOC_021791
TCONS_00043259 other downstream 193835 32407195 ~ 32409927 (+) True XLOC_021810
TCONS_00043260 other downstream 199174 32412534 ~ 32421750 (+) True XLOC_021809
TCONS_00043264 other downstream 905650 33119010 ~ 33119124 (+) True XLOC_021816
TCONS_00043265 other downstream 1076913 33290273 ~ 33290361 (+) True XLOC_021817
TCONS_00043266 other downstream 1081273 33294633 ~ 33309585 (+) False XLOC_021818

Expression Profile

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