RNA id: TCONS_00053077


Basic Information

Item Value
RNA id TCONS_00053077
length 1907
lncRNA type inter_gene
GC content 0.35
exon number 1
gene id XLOC_026636
representative False

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 38971435 ~ 38975698 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

cctcgacaagtccaaagacatgcggtacagatgaattgggtaagcaaatttggccatagtgtgtgaataagtgtgtatgggtgttttccagtgatgggttgcagctagaagggcatccgctgtgtaaaacacatgctggatatgttggcggttcattccgctgtggcgaccccagattaataaagggactaagccgaaaataaaataaatggatggatgattttattttgcaatagatTCTGACTTTCGTGCTGCTCTAATTCTGCTCCCCCATATTCTTAAAGAGGAAAATGATTGCTTACAGTAATTACACTGGAAGAGGTTTGGGTACTGTTGGTTAAACACTTTGTAATACTCTGATAGATGTTATGCAGTTCTGACagattttacattgtttattgatgtcctttactttttcttttcacagtgggatgatgatgatgctccATACCCAACTCTACAGATGGCTGAAAGTCCGTTTTAGAGGCATTATTACATCCTTCGCTGTTTACTGTGTTTTCAACTTGGCTTATCCATGctacataaagaatgcaaaggATGAACATCAGCAACTCCCCAAGATGGAACAACAATTTAAATTTGAACATCAGCAACGGTGTGAAGATGGAGATCCAAAATTTACTGCATTTACTTTGCTGCATGCGTTTTGAGTCGGCATCAGTATTTTAAGACTAGCAGCTATAGACATTTCAATAACATTGCCCAAATCAACTGAGAAGCACAAGATGAAACAATGCTAAGAATTTTCTCCGCCCAACATCCTTGATGAGATTGACACATTCAGGTGTTCAAATTGAACTGTTTTCATGTGCATGTGAGACCGCTAATGGAGAAGAAATGACTCTTTcctaatgaaatacattttaaatgtcaatactGCACTGGTTTCTGTGTAGCAAGTTTTTAATTCTGCTGTTGTATGATTCATATTTCCATGCAAATACAGTAAGAGTTTGACTTTGAATGGGGTGTTATAAACCAAGACAGACGGACTTTCAGGCTCTTGAAACATACTCTGCTgataaaatgtttcttaagaatgtttagaaatttcaaatcaaatgtgtaaaactgtttgatcaaaagtgtttttgagatctaaaatgaTTAAGGGTATACTTTAAGTGACATGTTTCAATGTACTGTATGGAAAAAGATTGCTTTGAGATTCTTGATGCTTTTAGAAAATGTAGAATGCAGTGCactaacaaaaatgtattttattaggtCTACTGTTGTTTTAGAAAAATTACTTTGTTACATTGGTAAAAATGCTCAGTGAAATGGGATGTactggtgtttaaaaaataatattaagtttttttgctgtttcataaaatgttttaaaatgtttaagcagctattttttaagtttatgcaTCTGGTATGACTTTGTGATAGTTTAAAACtttcatcttttaaaaaggtGACAGTGTAATTGTTTTGAATCTTTCCATGTGTGTTTGTGATAAAATGTTACAggtataaaattacaattatcgTGCAGTTTGTACTCATggaaaaatattgctttttattctttcaaaatgatgtaatgtttaaacatttatcctgtaaaaatgttgatatttaatatgtttaataaatgtgataaATAAATTTATTGTGTATGGAGTACAAATCTGAAATGAAAGGGTACAAAATTCATCCCTATGGAGGAGAAATTGTACCTTTTTTAAAGGTACATTATTGTACCATAGCCCAAGTAAGGTACAAATTAGTCAGCAGAGGTACATATTTGACCCCTAAAGGTACATACTGctagggtacaaatatgtacccatGTGAAAGGGTACAACAGGTGTACCCTTgagggtactgccccagtgacaagccattgtaccccaaaaggtacaaattttgca

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: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: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:0018130 heterocycle biosynthetic process biological_process
GO:0006351 transcription, DNA-templated biological_process
GO:0065007 biological regulation 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: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:0038092 nodal signaling pathway biological_process
GO:0035295 tube development biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:0032924 activin receptor signaling pathway biological_process
GO:0032925 regulation of activin receptor signaling pathway 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:0090092 regulation of transmembrane receptor protein serine/threonine kinase signaling pathway 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: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: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:0051281 positive regulation of release of sequestered calcium ion into cytosol biological_process
GO:0009966 regulation of signal transduction biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:1900107 regulation of nodal signaling pathway 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: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: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: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:0042663 regulation of endodermal cell fate specification biological_process
GO:0043565 sequence-specific DNA binding molecular_function
GO:0005515 protein 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: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_00051885 lncRNA downstream 442019 38525979 ~ 38529416 (-) True XLOC_026631
TCONS_00051884 lncRNA downstream 1185595 37777841 ~ 37785840 (-) True XLOC_026630
TCONS_00051882 lncRNA downstream 1197707 37771677 ~ 37773728 (-) True XLOC_026629
TCONS_00053076 lncRNA downstream 1211501 37757463 ~ 37759934 (-) False XLOC_026628
TCONS_00051874 lncRNA downstream 1271453 37678156 ~ 37699982 (-) True XLOC_026627
TCONS_00053079 lncRNA upstream 919 38974260 ~ 38975698 (-) True XLOC_026636
TCONS_00052480 lncRNA upstream 138973 39112314 ~ 39113547 (-) True XLOC_026637
TCONS_00051904 lncRNA upstream 398532 39371873 ~ 39454903 (-) True XLOC_026646
TCONS_00053080 lncRNA upstream 588443 39561784 ~ 39563301 (-) True XLOC_026648
TCONS_00051912 lncRNA upstream 719017 39692358 ~ 39696058 (-) True XLOC_026652
TCONS_00051893 mRNA downstream 52738 38914269 ~ 38918697 (-) True XLOC_026635
TCONS_00051891 mRNA downstream 55437 38912557 ~ 38915998 (-) False XLOC_026635
TCONS_00051889 mRNA downstream 187484 38762891 ~ 38783951 (-) False XLOC_026634
TCONS_00051890 mRNA downstream 193882 38765532 ~ 38777553 (-) True XLOC_026634
TCONS_00051888 mRNA downstream 225837 38705425 ~ 38745598 (-) True XLOC_026633
TCONS_00051894 mRNA upstream 139557 39112898 ~ 39152478 (-) False XLOC_026638
TCONS_00051895 mRNA upstream 162276 39135617 ~ 39171968 (-) True XLOC_026638
TCONS_00051896 mRNA upstream 202519 39175860 ~ 39180048 (-) True XLOC_026639
TCONS_00051897 mRNA upstream 208046 39181387 ~ 39190317 (-) True XLOC_026640
TCONS_00051898 mRNA upstream 218474 39191815 ~ 39198113 (-) True XLOC_026641
TCONS_00051892 other downstream 52718 38913378 ~ 38918717 (-) False XLOC_026635
TCONS_00051881 other downstream 1197635 37767285 ~ 37773800 (-) False XLOC_026629
TCONS_00051873 other downstream 1271484 37673648 ~ 37699951 (-) False XLOC_026627
TCONS_00051859 other downstream 1895622 37075698 ~ 37075813 (-) True XLOC_026621
TCONS_00051856 other downstream 2003442 36967871 ~ 36967993 (-) True XLOC_026618
TCONS_00051900 other upstream 264755 39238096 ~ 39259677 (-) False XLOC_026643
TCONS_00051909 other upstream 676104 39649445 ~ 39649562 (-) True XLOC_026651
TCONS_00051914 other upstream 984017 39957358 ~ 39957474 (-) True XLOC_026654
TCONS_00051921 other upstream 1115344 40088685 ~ 40088801 (-) True XLOC_026657
TCONS_00051924 other upstream 1180953 40154294 ~ 40158687 (-) True XLOC_026658

Expression Profile

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