RNA id: TCONS_00050623


Basic Information

Item Value
RNA id TCONS_00050623
length 4379
RNA type mRNA
GC content 0.46
exon number 8
gene id XLOC_025754
representative False

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 52999962 ~ 53076469 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GGGGCAAGTCTTTCTACGACAGCACCGCGGCTTGGGAACAAACCAACTGTGTCGGGTCGGCTGGCATGGAGCTGAGCGTTTCCATTCTGAGTCGTTTCGAGCCGTCCGCCTAGAGCCGGGGCATTTCGCGCAAGGCCGGGGGCAGTTTTGCTGTTGGTCCCGGGGGTTTGTGGAGCCCGAGTGAATCTGTTGCTAGCAGCGCTCGAATGCTAGTTAGCCCCGCTGCTAAGCAGCTAGCCAACACTGCGAGTCAATTGTGTCGGAGATCTCGGAAATACGTTTAAAAGCGGTCACGTTCACCCGCCGCTCTCGCGATTCGTTTTGCTCGTTGAGTTTCGTCTTTTTCCCCAGCGGGAGGACGCTAATAAGCGGTCGCGCGAGTTTCTATTTCGATTTATTTCCAGCTAagactttttttcttctctctatTAGCTTGTTAGCCGCTCTGGTTGGTTTAGTCCAGCTTGTTAGTAGTGTCTGAGATTTCTACTGTAATAGCTGTCAGCGACAACAGCCCCTTGACGAAAAGCCAGTTTATGTGGACATGAATGATCGTGTTTGGTTGTTTCGAGTGGCGATAGTTTGAGATGCCGCGCATGGGATACTTCATGTTTCCAGGGACGCTCTTATTTTCTTGTTAGTCTGCTTTATGGGAGTGCTAGTGTGCAGCCTTTTGCTGTAGACAACACTGGTTTTTAGCAGGAACCGCACGCGGTGTTTCACCATCGGTCGCGCGTCGTTTGGATGTGGTTCAGCCTCACATTTCAGTCGCACTCtcgttgtttgttttctttttttatctagTGGCTCGTTCAGCTCCGCGTTTGTATCCGCGCTGTCGGTGGTACATGCTCACTGAGACAGCCCGCTGAAACACGCTTTCATTGGTTTGCGGCGGGGAAACGGAGAGATTCGGCTCAAAAGTATTATGGATGATCAGACCCGAATGCTGGCTAGCATGGGCGGACTCGGCGGACTCTCGCAAGCCGACGTGGGTGACCCCGATTCGGTTCGGAAGCAGCAGTCGCTCGGTCAACCGCAGCAAGACATAGGAGATATCCTCCAGCAGATCATGGCCATCACCGACGAGAGCCTCGACGAAGCCCAGGCGAGAAAACACGCACTGAACTGCCACAGGTTGAAGCCAGCTCTCTTCAGTGTTTTATGCGAGATCAAAGAAAAAACTGTGCTGAGCATCAGAGGCGTGCAGGAGGAGGATCCTCCAGATCCACAGATCATGCGTTTGGATAACATGCTGCTGGCTGAGGGCGTCTCTGGGCCAGAGAAGGGTGGAGGATCTGCGGCGGCAGCAGCAGCTGCAGCGGCAGCTGGAGGATCACCTAATGATGGCAGCATCGAACACTCCGACTACAGAGCCAAACTCGCACAGATCCGCCAGATCTACCACTCCGAGCTGGAGAAATACGAACAGGCCTGCAGTGAGTTCACCAATCACGTGATGAACCTGCTGAGGGAACAGTCCCGCACACGGCCCATCTCACCCAAAGAGATCGAGCGCATGGTGGCCATCATCCACCGCAAGTTCAGCTCCATCCAGATGCAGCTCAAGCAGAGCACCTGCGAGGCCGTCATGATCCTGCGCTCCCGTTTCCTCGACgccagACGTAAGAGACGCAACTTCAATAAGCAGGCCACAGAGGTGCTGAACGAGTACTTCTACTCTCACCTCTCCAACCCGTACCCCAGTGAGGAAGCCAAGGAAGAGCTGGCCAAGAAGTGTGGGATCACTGTCTCTCAGGTCTCGAATTGGTTTGGCAACAAGAGAATTCGGTACAAGAAGAACATTGGTAAGTTCCAGGAGGAAGCAAACCTGTACGCCGTTAAAACAGCCGTGGACGCCGCCAATGTGTCGGCACAGGCCAGCCAGGCAAACTCTCCAGCAACACCCAACTCAGGTGGATATCCTGCACCGTGCTACACACCTGACGGCAGGCTATGAAGATCTGTCAGCAAGTCCTCTTTACACCCCACACCGTCTAGACGCTAATAACAGCTGGCAAGACAACACCAACCCTTCCTCCATCACCTCTCCACCAGGAGCACCCGGCAGCATCCACTCCGACACCTCCAgctaatctcacacacacacaatggtctTCCTCCGTCCTTGTCcacctctacacacacacacacacacacacactcgtctcGTTCTTTGAGGACGAGTCTGAAAACATGACTCGTCTCCTGGATCAAACCCCTCTACGATGGCGATTACGCAACTACTCCCTCCTCGCTTGTACCAAAGTGCTGTCAACGGTTGTTTCACTTTTCCGCACGTCGAAGAGCAACCTCAGACAACTGACCGCCCATCCAGTCTGCTTTTCACTATGATTTCCGCTACGTTGCGTTAAGCACAAATCCTGTCACTAAACACTGAGCTGGTGTTCGGGTGGAGAGGAGTTAAAGGTACGCTGGACCTATGAACACTTTGATTTCCAGTTCAGCTGAACGCAATGAGCGACCGCTCTCCGTTTTTAGTTTTCGCCACAGTATTCGTTTCCCTCGCCCGCAGCACGAAGATGCACCAGCCACCAAATAAAAAGACTTGATAAGAACTAGACCTCGCGTTGGTAAAACGGGGTCTGTCAGATGGACGGATAAGCTGGAGTATTGGTTTGGATCGGGGATCAGGGGGTGGgtgtttagaaatatttttaaagggaaagatgattaaaaaaaaagcgaTATTCCACTGTCTTCCATGCATGTAGGGTGTGTTGAGATGTTTTAGTGATTCCATTTAGCCTAACGTTAcgtttttcttttagttttttcctttcgtttttttaataaacaaaaaaaaaaaaactaaatatactaTAAAAGGAGAGGGTGGGAAAGTAACAGACCAAATAAACAAGTGAACAAGTAAAAGGACGTCATACTGCCCGGTGATCCAGTGCTTCGGGCTGGGGTTTGGTTTCTCTAGGGTTTCCGTGGTATTTTAAatagcacgttttttttttttcatctgtgaCACACACTGCGGCCTCTCGTCTTActggtgtgtgttgtgtgttttctaaGGGTTGGGTTGTCTCGTCACTCACTCGTGCTTTTGAACTGATTGTATTGTACGTGCAATTGAAAGCACCTGTTTCTTGGTAAAGCATGCTGTCTCTCTTTaatttgaccttttttatttttacgttttgttgttgttgcctaCAATTTCACTAAACTAAGGAACTCTGTTTTTTTGGTAATCAGTTAACATAGCCAAGCAACAAGGGCTTTTCTCCTGTCGAAATTTAACCAAAAATAAGCACTGGATGTGTTGTGATTTGAAACAGATGGACCACAGCTTGTagaggattttttttgttttcccgAAGTTACAGAGAACGAGTTGTccgtgtttttccttttttttttttttttttttttttttttttaaacgtttctCCGTTTAGTTTTCTCTTTATGGGCGGAAGCAGCAGGGCGTTTTTGATATATGAATGGAAATTCTATATATTACACAAAGGACTAAATAAGGTTGAAATGTAAATTGGGGTTTTGTTTATATATGTACACATGGAAAAACAAACTCTGAGGAGCTTTTCAAGCGTTTCTTCAAGATCATCACCGTGTCCTCTATAGATTAGTTCGAAACATTTCATATGGATATCTCCGACTAATGCTATTACTACACCaaaatttctttcttttcttttttctatcaGTCATCTATGGATGTCACTGTACAGATTGTGGAATGTTTCAGtgtatttttctctttttgtatgcttttgcttttttattatttttaaattctcGCTGGGGGGTTTTGGAGTAACATTTGTTAGTCTTTGTAATATTCATTTTAGCGTTTCAGTTACCTTTTATTTGGATCGGGAGTCTCGAGTGTTATTTTGTTTGTGTGGTTTTGTCAAAGCTGATGGCGTTTGTTTGAAGTGCCGTTAAACAAATTTTACAGGATCAACCGTCTTATTTGAGTATCTGCATAAGCTACGCTACAGACGATACGATACACTACATGTTGGACAATTTGTCACACAACTCTGGGATATTTTGGATTGTAATCGGAGTTTGAATCCGCAGCACCGACTCAAACGCCATCAGCATTTTATTtctcgattattattattattttagtagaaTTGTAGTACACGCTTCCTTCTGTATTTACCATTCTCTCCCTCCTCTCTACCTCTCCTCTCTCCATTTCACTTGTATATAAACCCCCCCATTTTCAGACTTGGTAGTCTGTATAAACTCCTTTTATACCTCAACTTTAGAACTGTTCtagtgagagagaaaaaaaagaaatatgagAAAATTGTAGTGTTCCTtattagaaaaacaaaaactaataaaataatctaGTGTGCTTT

Function

GO:

id name namespace
GO:0003342 proepicardium development biological_process
GO:0048741 skeletal muscle fiber development 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:0001755 neural crest cell migration biological_process
GO:0001764 neuron migration biological_process
GO:0055007 cardiac muscle cell differentiation biological_process
GO:0031016 pancreas development biological_process
GO:0030182 neuron differentiation biological_process
GO:0009887 animal organ morphogenesis biological_process
GO:0048568 embryonic organ development biological_process
GO:0035066 positive regulation of histone acetylation biological_process
GO:0031060 regulation of histone methylation biological_process
GO:0031061 negative regulation of histone methylation biological_process
GO:0003232 bulbus arteriosus development biological_process
GO:0045893 positive regulation of transcription, DNA-templated biological_process
GO:0003007 heart morphogenesis biological_process
GO:0048666 neuron development biological_process
GO:0007411 axon guidance biological_process
GO:0001654 eye development biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0007420 brain development biological_process
GO:0030901 midbrain development biological_process
GO:0030902 hindbrain development biological_process
GO:0048701 embryonic cranial skeleton morphogenesis biological_process
GO:0060059 embryonic retina morphogenesis in camera-type eye biological_process
GO:0005634 nucleus cellular_component
GO:0005667 transcription regulator complex cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0005515 protein binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity 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:

id description
ko03000 Transcription factors

ZFIN:

id description
ZDB-GENE-000201-18 Enables DNA binding activity and DNA-binding transcription factor activity. Involved in nervous system development and positive regulation of transcription by RNA polymerase II. Acts upstream of or within animal organ development; neuron development; and regulation of histone modification. Located in nucleus. Orthologous to human PBX4 (PBX homeobox 4).

Ensembl:

ensembl_id ENSDART00000104683

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00052380 lncRNA upstream 190252 52806272 ~ 52809710 (+) False XLOC_025750
TCONS_00052379 lncRNA upstream 607757 52390252 ~ 52392205 (+) True XLOC_025739
TCONS_00052798 lncRNA upstream 610923 52377578 ~ 52389039 (+) True XLOC_025738
TCONS_00050604 lncRNA upstream 620490 52367302 ~ 52379472 (+) True XLOC_025737
TCONS_00052378 lncRNA upstream 769809 52229866 ~ 52230153 (+) True XLOC_025735
TCONS_00052799 lncRNA downstream 450496 53526965 ~ 53652401 (+) False XLOC_025761
TCONS_00052381 lncRNA downstream 529697 53606166 ~ 53632347 (+) False XLOC_025761
TCONS_00052382 lncRNA downstream 555649 53632118 ~ 53649626 (+) True XLOC_025761
TCONS_00052383 lncRNA downstream 1034920 54111389 ~ 54111972 (+) True XLOC_025765
TCONS_00050637 lncRNA downstream 1146856 54223325 ~ 54226528 (+) True XLOC_025763
TCONS_00050622 mRNA upstream 19913 52953489 ~ 52980049 (+) True XLOC_025753
TCONS_00050621 mRNA upstream 47936 52899801 ~ 52952026 (+) True XLOC_025752
TCONS_00050618 mRNA upstream 116538 52806347 ~ 52883424 (+) False XLOC_025750
TCONS_00050619 mRNA upstream 116539 52806441 ~ 52883423 (+) True XLOC_025750
TCONS_00050616 mRNA upstream 198660 52737565 ~ 52801302 (+) False XLOC_025749
TCONS_00050625 mRNA downstream 39703 53116172 ~ 53224280 (+) False XLOC_025755
TCONS_00050626 mRNA downstream 80344 53156813 ~ 53223612 (+) True XLOC_025755
TCONS_00050627 mRNA downstream 152215 53228684 ~ 53231344 (+) True XLOC_025756
TCONS_00050628 mRNA downstream 164093 53240562 ~ 53274285 (+) True XLOC_025757
TCONS_00050629 mRNA downstream 240571 53317040 ~ 53350547 (+) True XLOC_025758
TCONS_00050620 other upstream 170956 52828912 ~ 52829006 (+) True XLOC_025751
TCONS_00050613 other upstream 379787 52620058 ~ 52620175 (+) True XLOC_025746
TCONS_00050578 other upstream 2924772 50069595 ~ 50075190 (+) False XLOC_025717
TCONS_00050573 other upstream 3867485 49132341 ~ 49132477 (+) True XLOC_025709
TCONS_00050561 other upstream 5539359 47460488 ~ 47460603 (+) True XLOC_025690
TCONS_00050635 other downstream 991054 54067523 ~ 54067639 (+) True XLOC_025764
TCONS_00050662 other downstream 2222574 55299043 ~ 55299158 (+) True XLOC_025787
TCONS_00050664 other downstream 2407044 55483513 ~ 55483647 (+) True XLOC_025789
TCONS_00050682 other downstream 4559905 57636374 ~ 57639448 (+) False XLOC_025808
TCONS_00050688 other downstream 4749470 57825939 ~ 57829919 (+) True XLOC_025812

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000113_01351820_01359750.mRNA True 3363 mRNA 0.38 6 CI01000113 1351412 ~ 1361658 (-)
bowfin (Amia calva) AMCG00008419 True 945 mRNA 0.62 7 CM030126.1 822678 ~ 843135 (+)