RNA id: TCONS_00005290


Basic Information

Item Value
RNA id TCONS_00005290
length 3682
RNA type mRNA
GC content 0.43
exon number 10
gene id XLOC_002857
representative False

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 31019607 ~ 31220558 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TTTTGAGTTTAATGACAGCAGCTCCTGGTGGTAGGTCCTGGAATTGTTCCAGTAATAATGCtttgaaactgtattttgtaaCTATACATTATCTATATCTGAAGAAAAcgttatttttaacaaatattattgcATCATTCAAATATCATTTCAAACACTGATATATTGCCAAGATCCACATTTTACTCactctaaataatattttatgtcaCTGTTTTCTTTGCTTCAGGGTCTCCATGTGaagctatcccatgatgcaacaTGTGTCCCCAGCACCAGCATTGACCATGATGGCCACACAGAGCGTCCCTCCACCATCATACCAGGAGAGCCAACAGATGACAGGCACTACTCAGCAAAACTCAAAGGGCCAGCATGTGCACCTCTCTGCAGCGTCAGCAGGAGGAGCCGCTCCGGTCAGCGTGACTCTTGACCCTCAAGCCCAACTGGAGTCTGACAAACGAGCCGTTTACAGGCATCCTCTTTTTCCTCTTCTGGCGTTGCTGTTTGAGAAGTGTGAACAAGCCACGCAGGGCTCAGAATGCATCACATCCGCCAGCTTCGACGTCGACATCGAAAACTTTGTCCACCAGCAAGAGCAGGACCACAAGCCTTTCTTCAGCGAGGATCCTGAACTAGACAACCTGATGGTGAAGGCCATCCAGGTGTTGCGGATCCACCTGCTGGAGCTGGAGAAGGTGAACGAGCTCTGTAAAGACTTCTGCAACCGCTACATCACCTGCCTCAAGACCAAGATGCACAGTGACAATCTGCTCCGAAACGACCTGGGCGGCCCGTATTCTCCATCCCAGACCAGCCTCGGCCTGCAGCAGGACCTGCTTCAAAGCTCATCCCCATCGCTCACCTCCGTCTCCAGCACAGTGAACTCCTCCGGGATCGTAGTCCCAGCCGGTCCCCTGCAGCAGAACAACATCTCCATGACCACTATCAACTCTCAGGTGGTCTCAGGTGGGACGCTGTATCAGCCGGTGGCAATGGTTACCTCACAGGGGCAGGTGTTAACACAGGGGTTACCACAGGGAACCATCCAGATCCAAAACAATCAGGTGAATCTGGACTTGTCCTCACTCTTGGATGGCGATGACAAgaaatcaaaaaacaaaagagGCGTCCTTCCCAAACATGCCACAAACATTATGCGTTCCTGGCTCTTCCAGCATCTCATgCACCCTTATCCAACAGAAGATGAGAAAAGACAGATTGCAGCGCAAACAAACCTTACCTTATTACAGGTGAACAACTGGTTTATCAATGCCCGCAGGCGTATTCTGCAGCCCATGCTGGATGCCAGTAATCCTGACCCTGCTCCCAAAGCCAAGAAGATGAAATCTCAGCACAGACCCACACAGCGCTTCTGGCCCGATTCCATTGTAGCTGGAGTCCTGCAGACACACGGCACAAACAACTCAGACAACTCTCTTGGCATGGACGGCCTGCAGCCTCTGTCCTCAGACTCGGCTACGCTGGCCATGCAGCAGGCCATGCTGGGCGGAACCGACGACTCCATGGACGGCACAGAGGAggaggacgaggaggaggaggaagacgaGGGACTCGATGAGGACGACGACGAAGAGGACGACGAAGAACACGAGGCGAGCAGACAGATGATCAGGCGAGATCTGGGCCTCAATCACAATGAAGGACTCGAATAAAGAATGAAAAATAGCATAACTGACTTAACTCTTACTCATCACCATGCAAAACATCTCAACGCCGCACAAATGGCTCTCATTGGACACTAAGTGCCATGGAGCACCCAATCATAATGAAGGGGAGGGGCCTACCATTCTGGACTCCAAAATTGATGGAACATTGTATATTGGGCCGCTTTACGCAACCGGTCATGCTACTCTCATGCATATAATCCATTTAAGCCTTACTTTCTTTAAATATGTCTCTTTGGTTCTCAGGTGTCTTAGCATGACATTATGTCTACCCTCATATTTATAACCATGCAATGAGTGGATGTTTTaggcatgtttttttattattattattattagtttcatTTTTTGTAGAGTTAACAAAATATTCAGTCTTGgaagttaaacaaacagaaaaaaagaaacaatctaAATGCCTGACAGCACAATGTATGTACATTTGACAGTGATGCATTTTCCCCCCCTCAGAcgcttcatatttattttgtaatctGTCAGAAGGCTGTGGCACAATCAACAAAGGATGCCGTCCGCAAACGCATGTCGGGAGACTCAGAGTGCCAAGCATCTCTTCCATAGCGAGGAACAAAAAACTCTCTCCGAAATATGTTTGGACCTACAAATGACGTTTACTGAAGAACACTGCAGGAAAAACAAAAAGACATATTTACAGGTGCGTATCACACCCTGAAACGCCCCTGCTTTATTTTATGTGAAGGacgaaactaaacaaaaaaaaaaaaactgtgaagaTATTTCTGAGCTGTATCTACGGATCTACAGAATCACCTGTTTCTGATATGTGATGTTTAGAGAAGACAGAGGATGTTTCTGAATGTTATTACAGTTGGTCTTTGTGAAGTACATGTTTCTCATTATCCTTTTCTTggttgttgttcttttttttaaatggttcttCCAGAGCAAGTGATGATAGGGGagctttttaattatttgtttgtatacATTGTTGTCATAATCTATTGTGTTTCAGTAGACCATTTTGATAATTAAAAACGTTGaaactttaaaaacttaaaaactttaGTTGATCTCTTTGTCATTTTGAGACCTAATGAAGTGCTACTACAAATGAATACAAGCGAGGTAGTGGTAAACTGTGTTAGTGCTAAACTGGGGTCATTATCGATATGGTGCAGTATGTgggtttgacacccagtggctgAACTAGTTATTGCAATCTTGGATCAAACCAAGCGCtggcaggttgccagattgaggacaagAGCAAGTGATTTGAACTGTGTTctgaaataaaagcaacggcacccgatagaaggaatattttccatattaaaaaggagtttttgtcctaaccaaagcattgatatattagaaagggcttctatttctcacaggtgaacaaaagaaaactgacaatgatcacctcaggtaaacctcatgtgctttattcagtgttaaatgccaacaatgtgagtttgaatgtcattttttatgacatttattgccaaatACTCAAAGCAGAACACCTCAAATCTTGAAAAgaaaatactgtttaaaattgaactttaCAAATGAACAGATAGGAGTGATTcagaatgttcatttaaaaatgttaaatatgcattaattagattataaaccttacattTCGTGAgtaagtgcatattctgtgcttctgaatggctgtatttaaatttctgtcatgtttcgtctggccaacagccaaattgctcatcttGTCATGAAGCGTGTTGCTAGGACAcgcggttacaatgtaacctgctcatttaatgtttatgttcgtattatttatattatttgctaattaataacgtcatgtggaactctgaatctgcatctcatttcggagtttgctactgtccactggaagTCGCATTCCGGTCACAGATGCATGCTTTCAGAGCCCTtctgaatgaaagaatgaataaaatatgtggTTTTCCACCAAGTCAACctggagtgctgaaatataattggctaaactggca

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0005634 nucleus cellular_component
GO:0003677 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

KEGG: NA

ZFIN:

id description
ZDB-GENE-031118-112 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding 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. Predicted to be located in nucleus. Is expressed in forebrain; immature eye; and midbrain. Orthologous to human PKNOX2 (PBX/knotted 1 homeobox 2).

Ensembl:

ensembl_id ENSDART00000186941

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00006075 lncRNA downstream 1528520 29266270 ~ 29491087 (-) True XLOC_002843
TCONS_00005269 lncRNA downstream 1881603 29128202 ~ 29138004 (-) True XLOC_002841
TCONS_00006074 lncRNA downstream 2554581 28460213 ~ 28465026 (-) True XLOC_002834
TCONS_00005770 lncRNA downstream 2601428 28417651 ~ 28418179 (-) True XLOC_002830
TCONS_00006073 lncRNA downstream 2634038 28382085 ~ 28385569 (-) True XLOC_002828
TCONS_00005294 lncRNA upstream 157869 31262852 ~ 31294777 (-) False XLOC_002858
TCONS_00006076 lncRNA upstream 157869 31262852 ~ 31295006 (-) True XLOC_002858
TCONS_00006077 lncRNA upstream 972828 32077811 ~ 32084121 (-) False XLOC_002862
TCONS_00006078 lncRNA upstream 972828 32077811 ~ 32084624 (-) True XLOC_002862
TCONS_00006079 lncRNA upstream 1111430 32216413 ~ 32250771 (-) False XLOC_002863
TCONS_00005288 mRNA downstream 2801 30997238 ~ 31016806 (-) False XLOC_002856
TCONS_00005289 mRNA downstream 4072 30999751 ~ 31015535 (-) True XLOC_002856
TCONS_00005287 mRNA downstream 234106 30617826 ~ 30785501 (-) True XLOC_002855
TCONS_00005284 mRNA downstream 1116442 29896275 ~ 29903165 (-) False XLOC_002853
TCONS_00005285 mRNA downstream 1119061 29896383 ~ 29900546 (-) True XLOC_002853
TCONS_00005295 mRNA upstream 193989 31298972 ~ 31440500 (-) False XLOC_002859
TCONS_00005296 mRNA upstream 193989 31298972 ~ 31562695 (-) False XLOC_002859
TCONS_00005297 mRNA upstream 195606 31300589 ~ 31563049 (-) True XLOC_002859
TCONS_00005298 mRNA upstream 633518 31738501 ~ 31782616 (-) True XLOC_002860
TCONS_00005299 mRNA upstream 695229 31800212 ~ 31805923 (-) True XLOC_002861
TCONS_00005286 other downstream 488350 30531143 ~ 30531257 (-) True XLOC_002854
TCONS_00005276 other downstream 1280499 29736186 ~ 29739108 (-) True XLOC_002847
TCONS_00005273 other downstream 1311425 29708068 ~ 29708182 (-) True XLOC_002845
TCONS_00005263 other downstream 2095974 28923517 ~ 28923633 (-) True XLOC_002838
TCONS_00005262 other downstream 2097356 28922135 ~ 28922251 (-) True XLOC_002837
TCONS_00005308 other upstream 1437553 32542536 ~ 32610769 (-) False XLOC_002866
TCONS_00005309 other upstream 1462641 32567624 ~ 32610694 (-) True XLOC_002866
TCONS_00005329 other upstream 2271835 33376818 ~ 33376941 (-) True XLOC_002883
TCONS_00005330 other upstream 2272018 33377001 ~ 33377086 (-) True XLOC_002884
TCONS_00005331 other upstream 2272147 33377130 ~ 33377214 (-) True XLOC_002885

Expression Profile

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