RNA id: TCONS_00058638


Basic Information

Item Value
RNA id TCONS_00058638
length 1500
RNA type mRNA
GC content 0.52
exon number 8
gene id XLOC_029940
representative False

Chromosome Information

Item Value
chromosome id NC_007116.7
NCBI id CM002889.2
chromosome length 72500376
location 15202495 ~ 15215483 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TCAGCGAGGGATCAAGCAGGAAACACCACGTTTGACAAACACGCCACTAGCCTGGACAAGCAAGCGGTGCAAAACTGCTCCAGATACATTAAAATGCATTACAGCACTGTCACGCGGGAGATGGAAGCAATATCAAGCCCGTGGCTGACGCAGCTGTCCCATTTTTGCGATGTTGCAGCCTTCACGACCAGCAGCCTGAGCAGCCTCAATACGCCCGGGAGTTACCATCTCTCTCCTTCTCCTGGGGATCCATACAGCCATCATGAAAGCCAGTTTGAGCCGTGCCCGGCTGCCCAGCACGCCTACAACTATTCCGGATCCAACTCAGCACAAGCCCCGGCACAAGGAGACAGCGGGACCTCCAATTGCTCCTCGTCGTCGTCAAGCTCAACGCCGAACAAAACGCTGGTGAAAAAGAACCCTAAAGTAGCCAATATTAATGTACAGTTGGAAATGAAGGCACTCTGGGATGAATTTAATCAACTTGGGACTGAAATGATTGTCACAAAAGCCGGGAGACGAATGTTTCCTACATTTCAAGTCAAAATATTTGGAATGGACCCAATGGCAGATTACATGCTCCTGATGGATTTCCTACCAGTGGATGATAAACGATATAGGTATGCCTTCCACAGTTCTTCGTGGCTGGTGGCCGGGAAAGCCGATCCAGCGACTCCAGGAAGAGTGCACTATCACCCCGACTCACCTGCCAAAGGAGCGCAGTGGATGAAGCAGATAGTTTCCTTCGATAAACTAAAACTAACCAATAATCTATTGGACGACAACGGACATATCATACTGAACTCAATGCACAGATACCAGCCCAGATTCCATGTGGTCTACGTGGATCCTAGGAAAGACAGCGAGAAATACGCCGAAGAAAATTACAAGACATTTGTTTTCGAGGAGACCAGATTTACCGCCGTCACAGCCTATCAAAACCACAGAATAACACAACTGAAAATCGCCAGCAATCCGTTTGCCAAAGGCTTCAGAGACTGTGATCCCGAGGACTGGCCCAGGAATCACAGGCCAGGCTCGCTACAAATCATGAGTGCTTTTGCTCGAACCAGAAACCCCATGTCTTCTCCCCCACAACAGAACGGCACAGAAAAAGAGGACAGCAGGCGAGAATATGACCGTGACCCCAGTGGGAATCCTCTGCATTCTGACCCCACTCACCAGCTAATGTCTCGAGTCCTCAGCCCTGCCCTTCCAGTCCTCGGCGGCCTCCATGCCGTGCCCCTCACAGCTGGCCCACGCAGCCCACCTCACGAACTTCGCCTCGACGGACACCCGCAACCACCAGACACCCTGCATCATCATCCCTACAAGTATCCAGCCACCTACGAACACTACCTGGGAGCCAAAACCAGGCCGTCCCCCTATCCCTCACCCAGCATTAGAGGCCACGGTTACCATCCACACATGAACCCAACCACAGCCAACATGTACTCTGCGACGAGCGCACCGACTAATTATGACTACGGACCCAGATAA

Function

GO:

id name namespace
GO:0001708 cell fate specification biological_process
GO:0048752 semicircular canal morphogenesis biological_process
GO:0043282 pharyngeal muscle development biological_process
GO:0043583 ear development biological_process
GO:0007507 heart development biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0001755 neural crest cell migration biological_process
GO:0003143 embryonic heart tube morphogenesis biological_process
GO:0055007 cardiac muscle cell differentiation biological_process
GO:0048538 thymus development biological_process
GO:0042471 ear morphogenesis biological_process
GO:0007275 multicellular organism development biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0072513 positive regulation of secondary heart field cardioblast proliferation biological_process
GO:0014032 neural crest cell development biological_process
GO:0060536 cartilage morphogenesis biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0060037 pharyngeal system development biological_process
GO:0048703 embryonic viscerocranium morphogenesis biological_process
GO:0001947 heart looping biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0005515 protein binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0042803 protein homodimerization activity molecular_function
GO:0003700 DNA-binding transcription factor activity 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

KEGG:

id description
ko03000 Transcription factors

ZFIN:

id description
ZDB-GENE-030805-5 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and protein homodimerization activity. Acts upstream of or within animal organ development; pharyngeal system development; and positive regulation of secondary heart field cardioblast proliferation. Predicted to be located in nucleus. Is expressed in several structures, including cardiovascular system; mesoderm; pharyngeal arch; shield; and vestibuloauditory system. Used to study DiGeorge syndrome and velocardiofacial syndrome. Human ortholog(s) of this gene implicated in DiGeorge syndrome; tetralogy of Fallot; and velocardiofacial syndrome. Orthologous to human TBX1 (T-box transcription factor 1).

Ensembl:

ensembl_id ENSDART00000144915

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00061413 lncRNA upstream 236145 14965817 ~ 14966350 (+) True XLOC_029939
TCONS_00061671 lncRNA upstream 872477 14327332 ~ 14330018 (+) True XLOC_029937
TCONS_00061412 lncRNA upstream 1080762 14098342 ~ 14121733 (+) True XLOC_029936
TCONS_00061670 lncRNA upstream 1526468 13665923 ~ 13676027 (+) True XLOC_029934
TCONS_00061668 lncRNA upstream 1530464 13665818 ~ 13672031 (+) False XLOC_029934
TCONS_00061672 lncRNA downstream 90259 15305135 ~ 15307475 (+) True XLOC_029941
TCONS_00058646 lncRNA downstream 524376 15739252 ~ 15801364 (+) False XLOC_029944
TCONS_00061673 lncRNA downstream 544687 15759563 ~ 15807373 (+) True XLOC_029944
TCONS_00061414 lncRNA downstream 706048 15920924 ~ 15923469 (+) False XLOC_029947
TCONS_00061415 lncRNA downstream 706070 15920946 ~ 15921913 (+) False XLOC_029947
TCONS_00058635 mRNA upstream 1198289 13870340 ~ 14004206 (+) False XLOC_029935
TCONS_00058636 mRNA upstream 1198629 13891202 ~ 14003866 (+) True XLOC_029935
TCONS_00058633 mRNA upstream 1549808 13647288 ~ 13652687 (+) False XLOC_029933
TCONS_00058634 mRNA upstream 1552419 13647323 ~ 13650076 (+) True XLOC_029933
TCONS_00058631 mRNA upstream 1641421 13549603 ~ 13561074 (+) True XLOC_029931
TCONS_00058640 mRNA downstream 136078 15350954 ~ 15353787 (+) False XLOC_029942
TCONS_00058641 mRNA downstream 136078 15350954 ~ 15357819 (+) False XLOC_029942
TCONS_00058642 mRNA downstream 136091 15350967 ~ 15357813 (+) True XLOC_029942
TCONS_00058643 mRNA downstream 280475 15495351 ~ 15513778 (+) False XLOC_029943
TCONS_00058644 mRNA downstream 280494 15495370 ~ 15513763 (+) True XLOC_029943
TCONS_00058637 other upstream 560226 14642152 ~ 14642269 (+) True XLOC_029938
TCONS_00058617 other upstream 1903081 13299331 ~ 13299414 (+) True XLOC_029924
TCONS_00058616 other upstream 1906073 13296307 ~ 13296422 (+) True XLOC_029923
TCONS_00058615 other upstream 1913062 13289353 ~ 13289433 (+) True XLOC_029921
TCONS_00058614 other upstream 1913589 13288828 ~ 13288906 (+) True XLOC_029920
TCONS_00058647 other downstream 528261 15743137 ~ 15743253 (+) True XLOC_029945
TCONS_00058656 other downstream 1814422 17029298 ~ 17029414 (+) True XLOC_029952
TCONS_00058672 other downstream 3918560 19133436 ~ 19134910 (+) False XLOC_029967
TCONS_00058694 other downstream 4862818 20077694 ~ 20077810 (+) True XLOC_029982
TCONS_00058714 other downstream 5460057 20674933 ~ 20675050 (+) True XLOC_029996

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000071_03446097_03455442.mRNA True 2079 mRNA 0.49 8 CI01000071 3445514 ~ 3455442 (-)