RNA id: TCONS_00042246


Basic Information

Item Value
RNA id TCONS_00042246
length 2002
lncRNA type intronic
GC content 0.40
exon number 1
gene id XLOC_020694
representative True

Chromosome Information

Item Value
chromosome id NC_007133.7
NCBI id CM002906.2
chromosome length 39133080
location 1363340 ~ 1365341 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

tagggttttcaccttgcATGGAGCAAAATACCATGTGTAATTCTCGTAtgtccaatacgacatctggtaaaaactacttgatcaaatcgattcttaaaatgtcttaaaattctgtgtgaaacttcaggttggatttgtatgcatggaaaatatattCTATGATATAATAATTACACATTGAGCcagcaattattatataatttgagtCAAATTCACAACAGTCTCATTTGAACTTTTATAAATATGCTCATATCCATCATAAAACTATAAGATAAAACGGAAGAAGAATCTTAGTCTTTGTTAttccaagtcatgttattatgagtgtgttGATGTGAACACTGAGCCTGGTCCCCTTTCTCCGCAAGAGTGTCAAAGTCTGGATTCTGCTACGTCAAAAAATGCGAggcgcagcaggcggttaaaacgtGAGGCGCGCAGGGTGCATAAGCAGCCCATCACATGGCGTTCACTTGTAATTGCATCATTAAATTACTAATTCTGAACCAAACCAttactcagaagcagcattttaaaactcCCTCGCGGGCCAGATGAAAGTGTTCAGCGGGCCGCATATGGCCCGCGGGACGTAATTTGCCCATCTCTGGGCTAAACACTTTGAGCTAGTTGGTCAGGCATGTTTTCTGGGCTGCGTAAAACAGATGCAAGTGTGAGAATCAGTTCAGCAAAACTGTTCTCTAGCAGTTTAAGTAGATTTTCATGGAAATAAAAGCCAATGTTAACTTTTTTATACTCATTTCTGGGCGGCTCATATAGATTATCTGGGGCAAATTTGGGAAAAAGGACAAGTAGCGTTAAAATGTATTCCTGTACTGTACTGTCACTGCTGTAATGGGCGGAGTTTTAATGTATGGTATTGGTTTGAATCAGCGTGGACAGTGAAATGTTTTGTACTATTGAAGGAATAAAATTACAGTCTAATGCTTCTTTTGAATTATATACATGTGGTCATGCTTATTTtgcatatgtatatgtgtttgctTGAACCATGATAATCTAATGAGCCTACGCAGTGGTATGCTGAGACATTctgtttgaccttaaaatgagacAGGAACTTTCCACCCCTATAATGTCAAATAACTAAATCTGTAACAGACAAGTCTTGCAGAAAGTCCctgtctgggttgcagctgtgacGTGTGACTTTTCTACACAGAAAAGAGAACTGGAGCAGAAAaggaaaatattgctttattgtcTTACTAATCACTCTTTTCTTTTGATATATTTTGTTATTGGAGGAATATACTCCCATTTGCCCCACtattcattatttacaatatgtgTTTTTGTCAGATATGATGATGTCTCCTGATATAGCGTACTTCTACTTAACTCCTGTTATAATGCGTTTCTAACTAACTGCTAAAACCACAAGAGCTGTGTGTGGGTGCTGGCTGGAGACAGAGCTGCAGAGGGGCTTCCCCTAGATGGGTGCATACACGGGTCAAGAGTTCATAGACAGGACTAGGAGGAAAAGCAGATGTGGTAGATGCAGCATTTGTATACTGCTCTCTGTGTATGCGTGATGTATGATGCTTTAATAAAATTGATATTATCCTGATATCTCTATAAGGAAGTTATGATGCTCAGCTGTGCTTTGATGATTTTTTGCTACAGTTGCTTGCTGCACCCCAGATGTCAGTAGTGTCAAGTATGTCAAGGAGGAGTGATACTTTCACCTGCCcttttgtttctgtgtgcagAGGTATCTCTGTGTGCTGACCACAGACTTTTGAGAGATGATTCTgcctgaaaacagctgatggcaaCAATACAGATTGGGGGTAACTGATCAGAGGAGTGGCCAAAAAGATTGAACGCTGCTGATGGATAAAAGGAGGGAGTCGAGAGAGTTCGAGAGCTTTTGGACATCCAGACTGCTTGGCTGACGGTTCTTCAAAAGCCCAGGATCCTGATCTTCGCTTTATTCACTTATGCTCGATAAATAAATTcattgattttgattaattga

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:0042074 cell migration involved in gastrulation biological_process
GO:0045995 regulation of embryonic development biological_process
GO:0019219 regulation of nucleobase-containing compound metabolic process biological_process
GO:0019222 regulation of metabolic process 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: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:0051171 regulation of nitrogen compound metabolic process biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:0002030 inhibitory G protein-coupled receptor phosphorylation 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:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:1901576 organic substance biosynthetic process 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:0031326 regulation of cellular biosynthetic process biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:0030509 BMP signaling pathway biological_process
GO:0090092 regulation of transmembrane receptor protein serine/threonine kinase signaling pathway biological_process
GO:0060976 coronary vasculature 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:1901362 organic cyclic compound biosynthetic process 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: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:1900094 regulation of transcription from RNA polymerase II promoter involved in determination of left/right symmetry biological_process
GO:0021703 locus ceruleus development 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:0061311 cell surface receptor signaling pathway involved in heart development biological_process
GO:0050794 regulation of cellular process biological_process
GO:0061312 BMP signaling pathway involved in heart development 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:0007420 brain development biological_process
GO:0001932 regulation of protein phosphorylation 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:0046483 heterocycle metabolic process 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:0007167 enzyme linked receptor protein signaling pathway biological_process
GO:0060322 head development biological_process
GO:0010862 positive regulation of pathway-restricted SMAD protein phosphorylation biological_process
GO:0000785 chromatin cellular_component
GO:0044427 obsolete chromosomal part cellular_component
GO:0044454 obsolete nuclear chromosome part cellular_component
GO:0005634 nucleus cellular_component
GO:0000228 nuclear chromosome cellular_component
GO:0005694 chromosome cellular_component
GO:0043227 membrane-bounded organelle 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_00042245 lncRNA downstream 46567 1315728 ~ 1316773 (-) True XLOC_020692
TCONS_00042244 lncRNA downstream 72484 1266991 ~ 1290856 (-) True XLOC_020691
TCONS_00042243 lncRNA downstream 93900 1260950 ~ 1269440 (-) True XLOC_020690
TCONS_00042242 lncRNA downstream 180861 1182084 ~ 1182479 (-) True XLOC_020687
TCONS_00042241 lncRNA downstream 195085 1156430 ~ 1168255 (-) False XLOC_020686
TCONS_00042247 lncRNA upstream 75337 1440678 ~ 1457344 (-) True XLOC_020695
TCONS_00042248 lncRNA upstream 84517 1449858 ~ 1453031 (-) True XLOC_020696
TCONS_00042249 lncRNA upstream 116142 1481483 ~ 1589655 (-) True XLOC_020697
TCONS_00042250 lncRNA upstream 132549 1497890 ~ 1525556 (-) False XLOC_020698
TCONS_00042251 lncRNA upstream 158391 1523732 ~ 1525556 (-) True XLOC_020698
TCONS_00040900 mRNA downstream 3484 1320991 ~ 1359856 (-) True XLOC_020693
TCONS_00040898 mRNA downstream 118114 1205787 ~ 1245226 (-) True XLOC_020688
TCONS_00040897 mRNA downstream 126337 1205787 ~ 1237003 (-) False XLOC_020688
TCONS_00040896 mRNA downstream 195049 1164656 ~ 1168291 (-) True XLOC_020686
TCONS_00040894 mRNA downstream 283567 1073413 ~ 1079773 (-) True XLOC_020685
TCONS_00040902 mRNA upstream 1509497 2874838 ~ 2886937 (-) True XLOC_020737
TCONS_00040903 mRNA upstream 1530170 2895511 ~ 2922053 (-) False XLOC_020739
TCONS_00040904 mRNA upstream 1531932 2897273 ~ 2929156 (-) False XLOC_020739
TCONS_00040905 mRNA upstream 1546025 2911366 ~ 2929127 (-) True XLOC_020739
TCONS_00040906 mRNA upstream 1565999 2931340 ~ 2937503 (-) False XLOC_020740
TCONS_00040899 other downstream 133318 1229906 ~ 1230022 (-) True XLOC_020689
TCONS_00040895 other downstream 203591 1158069 ~ 1159749 (-) False XLOC_020686
TCONS_00040885 other downstream 545933 812920 ~ 817407 (-) True XLOC_020678
TCONS_00040857 other downstream 1015926 344918 ~ 347414 (-) False XLOC_020658
TCONS_00040924 other upstream 2229927 3595268 ~ 3680725 (-) True XLOC_020748
TCONS_00040930 other upstream 2946462 4311803 ~ 4313118 (-) True XLOC_020752
TCONS_00040947 other upstream 3454069 4819410 ~ 4899294 (-) False XLOC_020764
TCONS_00040949 other upstream 3462615 4827956 ~ 4899294 (-) False XLOC_020764
TCONS_00040955 other upstream 3533245 4898586 ~ 4899116 (-) True XLOC_020764

Expression Profile

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