RNA id: TCONS_00041268


Basic Information

Item Value
RNA id TCONS_00041268
length 4032
RNA type mRNA
GC content 0.44
exon number 11
gene id XLOC_020982
representative True

Chromosome Information

Item Value
chromosome id NC_007133.7
NCBI id CM002906.2
chromosome length 39133080
location 12979213 ~ 13042992 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CTCGGCCAAAAATGAATTAGACACGAAGCTGGAACAAATTATGACGCGGGATTTggtttatttgtgtaaatataaCGTGTAATGTATTATTCTAGCCAAACATTTGACTTTGGAGGCTTGTTTACAAACTCATCAGCACTGTTGGGGACGAATAAGATGAAGAGGATTTCTTGTCACTTCTTATCAATgctaaaatatatttgaagagGAATTACACTCTTTGCGTTTCCTTTTATGTGATATTGAGATTTTGGGTGCCTTTTTTGCACaatttatacaatattatatttattataagcattttttcaagtataattattattttaacactaACGACCTGCGCATGAAAtcagattttatttgtttacgGGGTTGTTTTGCTTAATTTAGAAGGATTTCTGTTTCTGATAATTTGTTATAATTAATTTCACCTGAAGACTTGGACTCCTCATATTGACGCCTTAAACATGTACGCGGGACGAAAAAGAAGAAAACCGGTGCAAAGGACGGTGAAGCAGCCTCCAGCTGAAGGGGTGAAGTCGAACCCGTCCAAACGGCATCGAGATCGGTTAAACTCTGAGTTGGACCGGTTGTCTAGTCTTCTTCCATTTCCAGAGGAGGTGACGAGCAGCTTGGACAAACTCTCCATTCTGCGCCTGAGTGTCAGTTACCTGCGCGCCAAGAACTTCTTCTCTGTCACTCTGAAAAACCACAACTGCAATGGTTTGTCGTCAAACAACAGTAACCACGACAACAGTAAAGCAACAGGATTGGTTGACGGCTGTCTGCGAGAGGGAGAGCTCCTGCTACAgGCTCTTAATGGCTTTGTGTTGGTGGTCACAGCCGAGGGGATCATTTTCTACTGTTCTCACACTATTCAGGATTACTTAGGATTTCACCAGACGGATGTAATGCATCAAAATGTGTTTGAACTCATTCATACTGAGGACCAGCAGGCCTTCAGGCGCAATTTACACTGGGCCTTGAACCCGCCGCCAGCCAGCACGCAGACAGAAGACTCATCAGAAGATGGAGATCCTGCCCCAAATATGTCTCTTGTGTTGTGCAACCCAGACCAGCTGCCTCCCGAAAACTCTTCTTTCCTGGAAAGAAACTTTGTGTGTCGTTTCCGATGCCTCCTAGACAATTCCTCAGGATTCCTGGCTTTGAATTTTCAAGGACGTCTGAAATTCCTGCATGGGCAAAACAGGCGATTGGATGATGGAGGCCAAATGCCACCCCAGCTTGCCCTGTTTGCCATTGCGACGCCCCTACAGCCTCCTTCCATAATGGAGATTCGAACCAAGAACATGATATTCAGAACCAAACACAAGTTGGATTTCACCCCAATGGCCTGCGATGCAAAGGGTAAAATAGTTCTTGGCTACACAGAGGCGGAACTGCGAGTTCGAGGTTCAGGGTACCAGTTCATCCATGCAGCTGATATGCTCTACTGTGCTGAGAACCATGTCAGGATGATCAAGACTGGAGAGAGTGGTCTGACTGTTTTTAGACTGCTTACAAAGGACAACCGTTGGAAATGGGTACAAGCTAATGCTAGACTTGTCTACAAAAATGGCAAGCCTGACTACATCATTGCCACCCAGAGGCCACTTGTAGAAGAAGAGGGTGGAGAGCACTTGAGGAAACGATCTATGCATCTTCCATTCACCTTTGCTACTGGAGAAGCTCTGCTGTACCAAATCAACTACCCCATGTTGGGCTTCCCCGACACCCTTCAGGACAAAGGCAAGAACAACAAAACCAAAAAGAGCAAGGTGAACAAAAGCTCAAAGGACGATCTGGATCCAAGTTCCTTACTGGGAGCCATGATGAGACAGGACGAGTCTGTTTATGTTTGCCAGCCAGCTATGGAGCCTAGAATGTCATTCCACAGTAGCCTCTTTGGTGAGCAAGGAGAGACTAGCACTTTCTCTTCTTCTGCTGAGAATGAAAGTTGGAATCCAGTGCAGAATGGTGTAACTACAGCCTCCAAACAGGAGACGTCGAGTTTTGACCCACTTTTGGCAACATTAGACTCTCTTTCTTTGGAAAATGAGGAGAGCTGCTCCAACAGTGAGTTATTCAGTGCCCTTGAAAATCTTGGACTCAATGCAGAGGACCTTGAGTTGCTGCTTCTAGATGAAAGGATGATCCAGGTAGAAGTGGAACCGGACTTTATCCCATCTCTCAATGATCTTCTCACAAACAACGAAATCCTCTCCTACGTCCATGATTCACTGGAGAACCAGACTGAGGACCCAGCAGAGTCTCAAAAGCCTTCAACTGCATTAGATTCTGTTGAAAACTCTAAGCCAGAGTCTGATTCACCTCCTCAAGTAACTTCATCCGTACCTGCTCCTTTCTGGCCACAAAAACAGATACCACCCATACTTCATCTATCACAGCGCATGCAACAACATCTTAATGGCCAGTCGGTTTGCCACAAAACTGAGAACTGGATCCATACACCATTGTCTCAAGTGCCTACAACAGAATCTGAGACAGCTAACTTTAACCAGCATGATACTACTTTGGTGAACTCTGTACCAGTTGTACACAATGGACACTGGGTCCCTGAACATACGCAAGTCAATTTAAACTCTCAACTTAGTGATAAGATAACAGGAACTAGTAAGGCACAGCCACAGCAATGGCAGCAAAACCAGTTGCCTGTCCCATTCCAGTGTAAGCCGAAAACAATTGAGGGTGGAGATACCCTTGCAAATGGGATCTACAGTAATCCTCAGTGGCATGGATACAACTTTGCAGAACAGCTGGTCACAAATGGACCTTGTTTTCCCAATGGTCAGATGGCACACACTCAGACAATGGGTACCCATATTATTGATTACAACATGACTGACAATTCAGGGGTGGAGTTTACAATGAACAGCAGTTCATCTGGGAACCTAGGGCAGTTTCAGGGAGCTATGGCATCATCTTCGTCCTATCAGCAGGGTTATcagaaacagcagcagcagccaaAGGTCACACCCACTTATTACGCCTCCTATACCAAACAGAACTCCTCTCTGGAGCATATCCTAGGATTAGCCCCACCTTCAAACCTCCCCTCGCTGACGGATTATGGCTCTGAGTTGACCCATGACATGACCCACAGTAAGATGGAGACCGGTTTTCTTCTGAACTCCACTAGCGTGACCTACAACGGAAGTTGTTTGGTTCCCAATGGCAACACAGTGGCCGCACCTGTCAACAGTCCCCACCCACTTCCTGAGCCACACCCACATCCTCCAGACCCTCAAACCACTGGTTTCTACCTCTGAACATAGTAAAGATCCATCCGAAGAGATGCCATCCATCACGGGAAGACTGTCAAGCATAAAttatggtttgtttttgttttttagtttgttttcttttttcttatcaATTTGAATGGgttttaatttcaattaaatCGACACAGATTGATCTCTGGAATATTTAACCAATTGAAGTCGTTGAATACTGCACCCGGCATAATGTGAGCACTCTCGTTAATATTACTTGCCATTATGTTACGAAATTTCTAAAGTTGGAAGATGCAGTCGATCACAATTTGCGTTGGTCCGTCCATAACAGGTGTGTGTTGGGaaatgtttgtgtatatgtacgtgtgtatgtttgtgtgtgtgtgtgcgtgtgtgtgtgtgtgtgtgtgtgagacaattCGTTGGAAATCGTTTGTGAAATACAAGTAGTACAAATTTGTGCTAATTGTTCGGAAAGCTAAATGACGTAAATAACGTCATGCGCAACATATAGAACTGATTGTCCTGAAACGCAGTAAATGATGTTTATATGAACAGAAGATTggattgcatatttatttatgggAAAATGCAAGGTCGCTACCTTCTTTTTACCAACAGTTTAAAGAAAACTGTGCGAGATGTCAGTAATAACACAGATTGCAGTATAAAAAAATTCTGTAGATGTCGCTTGTAGATCTGAACCCTTCTCGCTATTGCATTTTGTGAGATTAGATTTTGTAAAGCTGATTCTAGATCAGCTTTACAAATCAAC

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0009410 response to xenobiotic stimulus biological_process
GO:0006805 xenobiotic metabolic process biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0005634 nucleus cellular_component
GO:0003677 DNA binding molecular_function
GO:0004879 nuclear receptor activity molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function
GO:0046983 protein dimerization activity molecular_function
GO:1990837 sequence-specific double-stranded DNA binding molecular_function
GO:0098531 ligand-activated transcription factor activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-050922-1 Enables DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and ligand-activated transcription factor activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated and xenobiotic metabolic process. Predicted to be part of aryl hydrocarbon receptor complex. Predicted to be active in nucleus. Is expressed in eye. Human ortholog(s) of this gene implicated in retinitis pigmentosa 85. Orthologous to human AHR (aryl hydrocarbon receptor).

Ensembl:

ensembl_id ENSDART00000028787

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00042356 lncRNA downstream 14336 12958222 ~ 12964877 (-) True XLOC_020981
TCONS_00042355 lncRNA downstream 28921 12949820 ~ 12950292 (-) True XLOC_020980
TCONS_00041267 lncRNA downstream 38504 12933560 ~ 12940709 (-) True XLOC_020979
TCONS_00041942 lncRNA downstream 44496 12933290 ~ 12934717 (-) False XLOC_020979
TCONS_00042354 lncRNA downstream 192772 12777889 ~ 12786441 (-) True XLOC_020975
TCONS_00042357 lncRNA upstream 144869 13187861 ~ 13188332 (-) True XLOC_020985
TCONS_00042358 lncRNA upstream 158486 13201478 ~ 13244142 (-) False XLOC_020986
TCONS_00041271 lncRNA upstream 175873 13218865 ~ 13238671 (-) False XLOC_020986
TCONS_00041943 lncRNA upstream 175873 13218865 ~ 13244231 (-) False XLOC_020986
TCONS_00041272 lncRNA upstream 175873 13218865 ~ 13244551 (-) True XLOC_020986
TCONS_00041265 mRNA downstream 53472 12911236 ~ 12925741 (-) True XLOC_020978
TCONS_00041264 mRNA downstream 88292 12870275 ~ 12890921 (-) True XLOC_020977
TCONS_00041262 mRNA downstream 116798 12831675 ~ 12862415 (-) False XLOC_020976
TCONS_00041263 mRNA downstream 116798 12846949 ~ 12862415 (-) True XLOC_020976
TCONS_00041261 mRNA downstream 215863 12752286 ~ 12763350 (-) True XLOC_020974
TCONS_00041269 mRNA upstream 3278 13046270 ~ 13165186 (-) True XLOC_020983
TCONS_00041273 mRNA upstream 233701 13276693 ~ 13350356 (-) False XLOC_020987
TCONS_00041274 mRNA upstream 239485 13282477 ~ 13350240 (-) False XLOC_020987
TCONS_00041277 mRNA upstream 415743 13458735 ~ 13544244 (-) False XLOC_020989
TCONS_00041278 mRNA upstream 419992 13462984 ~ 13466246 (-) True XLOC_020989
TCONS_00041266 other downstream 44624 12933485 ~ 12934589 (-) False XLOC_020979
TCONS_00041252 other downstream 353108 12617149 ~ 12626105 (-) False XLOC_020970
TCONS_00041253 other downstream 353134 12624266 ~ 12626079 (-) False XLOC_020970
TCONS_00041251 other downstream 367912 12607333 ~ 12611301 (-) False XLOC_020970
TCONS_00041246 other downstream 394259 12584839 ~ 12584954 (-) True XLOC_020969
TCONS_00041270 other upstream 58744 13101736 ~ 13112322 (-) True XLOC_020984
TCONS_00041280 other upstream 668442 13711434 ~ 13716397 (-) False XLOC_020993
TCONS_00041282 other upstream 668442 13711434 ~ 13716585 (-) False XLOC_020993
TCONS_00041281 other upstream 668442 13711434 ~ 13716585 (-) False XLOC_020993
TCONS_00041283 other upstream 669600 13712592 ~ 13716020 (-) False XLOC_020993

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000015_07938405_07978447.mRNA True 3735 mRNA 0.46 14 CI01000015 7938371 ~ 7979064 (-)