RNA id: TCONS_00022008


Basic Information

Item Value
RNA id TCONS_00022008
length 2121
lncRNA type inter_gene
GC content 0.33
exon number 1
gene id XLOC_010163
representative True

Chromosome Information

Item Value
chromosome id NC_007127.7
NCBI id CM002900.2
chromosome length 55266484
location 40941737 ~ 40945757 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ttaaacttgcgGGTCTGCACAGCGGGGTATTGTCCATTGACTTTCACTTAGCATTAGCAGCCAGCAAATTTGAATTCGTGTTGTCCAATAGGATTTTTGCCCGCGCCGTGCATTCATAATGCCAGCTGATTACGTGTGACGGTTAATCTCCAGCTGTTGCACTGTTGTTCTGACGCTCTTCTCGGCGTCGACGGAGGATGGACCTGAAGGACGCAAAGAAGCTGGAATACGCTCGTGAAGATGAAGCACAGACATTTGCAGGTaagtttaatgttaaataacGTATTGTAAATATCCGTTGGGTCATATTCAATTCATATTTGACGTTACTTTGTCTTGTGTATGTAGTTAGGATTAACGTTACCGTCGAGTTACCTGCCGCGTGAGGGGACCCTTTGTAATTTAAGGTTGACcagaaattaaaatatgattttttacatAACCTGGCCATGAGACAAAGCTCGAGACACTGGCAAAACAGCGGTGAAACGTCCAGAGAAACAGTTCAAACACATTTAAGTTAGTTTTGTTTGGATAATGTGGTTAAGTCTTTATTGCATACGTTATTTATAAACTCAGAATTTCCTTAGTGTTGGGAAGCTAACATTCATGCTAACGTTCATGTTTATTTCGGAAAGGAGTGAAGTGAATGCCTTCATGTctgaaacaaaataactttaacTTTAGTTTATGCATATCTCGACCCACGTCCATTTATAGCAGTTGTATTTTGCAacgttacatatttaaataacgtTATAAATGCATGTCCAAGAGAGTCATAATCATCTGTCGTGTCAGATCGAGGTGCGGGTCATTTATCAAACCTTTAAGTTgctaatttaaagctttttttttttttttctgttaacctCAAGTTCACACCGATCATAATTCTTTTTCTTTCAGAAAATGAAGTGGACGAGGAAGCAGTAGAGTGTAATAACGTAAGTATTTAGTATTTTGTATTTCATCTGtttgttaataatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatattatttatgtgtgtgtgtgtgtgtgtgtgtatactttttCCCCAGGAATTCATTGTGCAGTCTTAAATTTAATCTCCCTTTTTCTATTCAACTGTTCAACTGTTAGGTGAAGTGTTAAAGTTATATTTGAATTTTTATGATTGTCATTATTTTGCACTTATATTTGATCTAATAGGTAATTGCTGCAATTGGTGAGGATGCATCATCTTTTGAGAGTAATGCGAATGTCCTGCGTATCCTGTGAAATAAGGTGTGTGACCCTTTATTAAAAACACCCTTGTCAGTGAGAtcacacattttaaatcagttctcagtttaaatgaaaagtttaatGTCAGTAATAGCCAAAGTGTAGGATCAAAtgactattataaatgttatgactattgtaaaaaaaaaaaaaaaaattttaagcttTGTGGTGAACATATGTGCATTCAAGCTTACAACTATTTGTACAGTGATAACTAAAGGGAAATGGTAACAAAGAATATTAGATAATGTTTTTAGTTAAAGTGAATCActaatttcctttttatttattatagtcatGGTGAACCTGACTGAATGCATTCATCAACCATCTCCAACCAAGTCAGAGCTTCAAGGACAGCTTGTGCTAAAGGTGCCTGAGCTTGATTAAGAAAAAAAGCATCTCCACTGGCCAAAGTCTACAAAAAAGCAAGAGAATAGAAGTTTGCAGATGATCTAACAGGTATTAACATAAAACTTACGTAATAATAATTTTGCTAGATCAAACCCTTATTTCTTGGATGGGATCATTAAGTGCCTTTTCAAGCTGCATTTAGCAAGTTCATACTCATAGGCCTTATATACAAACCCTTTATATACAAAACATTccttaatgtttttctttaaaaaatgtaattcataaaaatacatCAATATCTTTTATTCAGCATTTGCTAAACATTCcaataatttttctttattttaaaaacaggtcctttatattattaaattatttaagagtacttcattatttgtctttattttattttagggtgtcacagtggcgcagtgggtagcatgatcgcctcac

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: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:0018130 heterocycle biosynthetic process biological_process
GO:0006351 transcription, DNA-templated biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0010646 regulation of cell communication 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:0036342 post-anal tail morphogenesis biological_process
GO:0003401 axis elongation 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:0031326 regulation of cellular biosynthetic process biological_process
GO:0048568 embryonic organ development 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:0010468 regulation of gene expression biological_process
GO:0010470 regulation of gastrulation biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0023051 regulation of signaling biological_process
GO:0009966 regulation of signal transduction 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:0061312 BMP signaling pathway involved in heart 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:0010556 regulation of macromolecule biosynthetic process biological_process
GO:0060026 convergent extension biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0060028 convergent extension involved in axis elongation 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:1901213 regulation of transcription from RNA polymerase II promoter involved in heart development biological_process
GO:0009790 embryo development biological_process
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: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_00022007 lncRNA upstream 48361 40873241 ~ 40893518 (+) True XLOC_010162
TCONS_00020153 lncRNA upstream 358729 40580500 ~ 40583150 (+) True XLOC_010161
TCONS_00020143 lncRNA upstream 587801 40346484 ~ 40354078 (+) False XLOC_010157
TCONS_00020133 lncRNA upstream 788197 40131464 ~ 40153682 (+) False XLOC_010153
TCONS_00022009 lncRNA downstream 92648 41036647 ~ 41054652 (+) False XLOC_010166
TCONS_00022010 lncRNA downstream 109253 41053252 ~ 41054652 (+) True XLOC_010166
TCONS_00021744 lncRNA downstream 185065 41129064 ~ 41129320 (+) True XLOC_010168
TCONS_00021746 lncRNA downstream 198660 41142659 ~ 41144116 (+) False XLOC_010170
TCONS_00021745 lncRNA downstream 198660 41142659 ~ 41144116 (+) False XLOC_010170
TCONS_00020152 mRNA upstream 355086 40576680 ~ 40586793 (+) False XLOC_010161
TCONS_00020151 mRNA upstream 356099 40576679 ~ 40585780 (+) False XLOC_010161
TCONS_00020149 mRNA upstream 356115 40575742 ~ 40585764 (+) False XLOC_010161
TCONS_00020147 mRNA upstream 372110 40560622 ~ 40569769 (+) False XLOC_010160
TCONS_00020154 mRNA downstream 10482 40954481 ~ 40955839 (+) True XLOC_010164
TCONS_00020155 mRNA downstream 71164 41015163 ~ 41030634 (+) False XLOC_010165
TCONS_00020156 mRNA downstream 71782 41015781 ~ 41021830 (+) True XLOC_010165
TCONS_00020158 mRNA downstream 116162 41060161 ~ 41103782 (+) False XLOC_010167
TCONS_00020159 mRNA downstream 123587 41067586 ~ 41103755 (+) True XLOC_010167
TCONS_00020150 other upstream 356103 40576679 ~ 40585776 (+) False XLOC_010161
TCONS_00020144 other upstream 592925 40346595 ~ 40348954 (+) True XLOC_010157
TCONS_00020142 other upstream 594503 40346447 ~ 40347376 (+) False XLOC_010157
TCONS_00020139 other upstream 621649 40302791 ~ 40320230 (+) True XLOC_010153
TCONS_00020136 other upstream 758020 40183743 ~ 40183859 (+) True XLOC_010154
TCONS_00020157 other downstream 98311 41042310 ~ 41054232 (+) False XLOC_010166
TCONS_00020166 other downstream 602764 41546763 ~ 41548437 (+) True XLOC_010175
TCONS_00020194 other downstream 1828713 42772712 ~ 42781394 (+) False XLOC_010194
TCONS_00020198 other downstream 1932447 42876446 ~ 42878011 (+) True XLOC_010197
TCONS_00020200 other downstream 1954430 42898429 ~ 42898510 (+) False XLOC_010198

Expression Profile

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