RNA id: TCONS_00032959


Basic Information

Item Value
RNA id TCONS_00032959
length 2713
RNA type mRNA
GC content 0.45
exon number 8
gene id XLOC_016824
representative True

Chromosome Information

Item Value
chromosome id NC_007113.7
NCBI id CM002886.2
chromosome length 59640629
location 47370323 ~ 47431205 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

AATCCACAACAACAAGTGTGTCAACAACAACGGAACCAAGCTTTGAGAGTGTTATCTTCCAAACCGCTTTGAGATAAACCACGATTGAAAACCTGGATATCCGTGAATAACTTCAGAGGACTGGAAGCGACGGTTTGACTTCTGaagttgactttttgttttcGCCTGAAGACCTCAATACTTGGGCAGTCCACTGACACTTGACGACTAGCGCTTTCTCTTTGGATAACTTTTTCTATCAAGTGCTTCGTGCATCCTTTTTTCGTGCAGAGGAGATATGACCGCATTAGCGGGGGGCATTTCCAGGATGATGCGCCCCACGCCACCCCAAAACTACCCGAGAGGTGGCTATTCCTTGGAGGTCTCTACGCCTTTAGGTCAGGGCCGCGTGAACCAGCTCGGCGGAGTCTTCATAAACGGGCGCCCTTTGCCCAATCACATCCGCCACAAGATAGTAGAGATGGCCCATCACGGCATACGACCGTGCGTCATCTCCCGGCAGCTGCGAGTCTCACACGGATGCGTGTCCAAAATTTTATGCAGGTACCAGGAGACCGGTTCCATTCGGCCCGGGGCTATTGGTGGCAGCAAACCCAAGCAGAGCACAACTCCTGACGTGGAAAAGAAAATCGAAGAATACAAGAGAGAAAATCCAGGGATGTTCAGCTGGGAGATTCGGGATAAACTTCTGAAAGATGGAATCTGCGATCGGAATAACGTTCCTTCAGTGAGTTCCATCAGCCGCATGCTGCGCTGTAAATTTGGTGGAAACGgagatgaagatgaggatgacgATGAAGTGGAGAAAAGAGAGATTGAAGAAAACGAAAGAAGAGCCAAGCACAGCATCGACGGAATTCTTGGGGACAGATCAAGCCACTCTGATGAGGGCTCAGATGTGGACTCAGAGCCTGGTTTACCATTAAAGAGGAAACAGCGGCGCAGTCGGACCACGTTCACAGCCGAGCAGCTAGAAGAGCTGGAGAGAGCCTTCGAACGCACACATTACCCTGATATTTACACCAGAGAAGAGCTCGCCCAGAGAGCCAAACTCACAGAGGCACGAGTGCAGGTCTGGTTCAGTAATAGACGAGCTCGCTGGAGGAAGCAGGCGGGAGCCAATCAGCTTATGGCATTTAATCACCTGATACCTGGTGGTTTCCCTCCCTCTGCCATGTCGAGTCTACAGCCTTATCAGCTGGCGGACTCTCCTTATCCTCCGTCGTCTATTTCACAAGTCTCGGAACAGCCCAGCACTGTGCACAGGCCCCAGCCTCTTCCCCCCACCTCAGTGCATCAGTCTGGGCTTGGCAGTGGACCGGGGGCCCAGGAGGGGAGTTCGGCCTACTGCCTCTCCTCTGGACGTCACGGCTTCTCTGGTTACTCAGATGGATATGTGGCCGCACCGGGCCACGCAAACCCAGTGAACCCCTCCATCAGCAACGGCCTCCCATCACAGGTGATGGGGCTGTTGAATCCAGGCGCAGTTCCTCATCAGCCGCAATCTGATTTCGCCCTGTCTCCGCTGACGGGCGGTTTGGAGCCCAGCACAGGCATGCCCGCCAGCTGCCACTCCTCTCAGAGACTGGAAGCTCTGCCAGGCCTTCCCAGCATGCCAGCTCTGCCCAGCTCCCAGTCCTACTGCCCGTCCAGCTACAGTTCACCCGGGTACAGCGTCGACCATGTGGCGTCTTACCAGTACAGCCAATATGGGCAGAGCAAGGTGAATACCAGCACTGTTACTACTGTAGAAAGACTGTCACGTGTTTATCCTCTAAAAAGGGCTTCATTTGGATTGGTGGAATAAAGCAAAATATTACTTAATTGAATTGCTCTCAATAATGTCAGAAGATTATTTATGTTCATGAGACTTTGTCAAAATTTTTTGCAACATACTATGTAGTCTTAATTATGTGGAAATTTTTACACAACATTTACATCATTTTAACCAAAGAACCAAAATGCAATTAGCCACCTTGTTCAAATCTATATGATATTTTGGAAAGATGTTCTACTtggttatacactgtaaaaagtgattagttacttgattaaaaaaaaaaaaaattgaggtaACCTGTTaccttaaaagtgacaagttgactttgagtaaacctgttgtaacGCAGAACTGTTATTATTACTCACATAGTTCATTTACCTAAATTTTTTTAACCTCTTAAGACcaaaggtgttttttttacatgcattttttatttctctttgctatttgggctcattggaacctaattagaataaaaacctaagtatcatcttttgatatgattatatgtggaccgaatttacataaaacactttttttctgaatgttttttaatgcatatttaacatctaatttttttggacatgttttgactatcagagagtaaaaacaacattccTTTTTCCATTTTGGACACTAAAAATAGTGTTTCAGGCAGTTCATATGCCGCAAAACAGTTGCAGTATGGCCCTGTATGCAGTATGGCCACTGAGTTGCAGTAtggtctgtaacaaaatataaaacattcaaagtattttaaattgcCACTTCAGAGCTAAAATGTGCGGTCCACGTATAATAGTAACAGGttcactcacttttttaagtcaactaattccTTTTTACAATATCAAAAGCGacagattattttcattattctgaCATATGTTTGGGTGTTAACAaacattgaaataaaacaaattaaaatat

Function

GO:

id name namespace
GO:0048484 enteric nervous system 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:0050936 xanthophore differentiation biological_process
GO:0007275 multicellular organism development biological_process
GO:0048856 anatomical structure development biological_process
GO:0048066 developmental pigmentation biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
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-980526-52 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within enteric nervous system development; neural crest cell migration; and xanthophore differentiation. Located in nucleus. Is expressed in several structures, including muscle; nervous system; neural crest; neural tube; and paraxial mesoderm. Human ortholog(s) of this gene implicated in Waardenburg syndrome type 1; Waardenburg syndrome type 3; Waardenburg's syndrome; alveolar rhabdomyosarcoma; and craniofacial-deafness-hand syndrome. Orthologous to human PAX3 (paired box 3).

Ensembl:

ensembl_id ENSDART00000038828

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00033941 lncRNA downstream 12114 47357321 ~ 47367152 (-) False XLOC_016823
TCONS_00033940 lncRNA downstream 12114 47357321 ~ 47367152 (-) True XLOC_016823
TCONS_00033939 lncRNA downstream 34440 47341771 ~ 47344826 (-) True XLOC_016821
TCONS_00033407 lncRNA downstream 279605 47090745 ~ 47099661 (-) True XLOC_016819
TCONS_00033406 lncRNA downstream 513704 46863035 ~ 46865562 (-) True XLOC_016817
TCONS_00033942 lncRNA upstream 555242 47986447 ~ 47988542 (-) False XLOC_016834
TCONS_00033943 lncRNA upstream 555242 47986447 ~ 47988542 (-) False XLOC_016834
TCONS_00032970 lncRNA upstream 555242 47986447 ~ 47988542 (-) False XLOC_016834
TCONS_00033944 lncRNA upstream 555242 47986447 ~ 47988598 (-) False XLOC_016834
TCONS_00033945 lncRNA upstream 555242 47986447 ~ 48010815 (-) False XLOC_016834
TCONS_00032946 mRNA downstream 339504 47038403 ~ 47039762 (-) True XLOC_016818
TCONS_00032944 mRNA downstream 1688138 45666146 ~ 45691128 (-) True XLOC_016814
TCONS_00032938 mRNA downstream 1715321 45655294 ~ 45663945 (-) False XLOC_016813
TCONS_00032937 mRNA downstream 1748443 45629707 ~ 45630823 (-) True XLOC_016812
TCONS_00032935 mRNA downstream 1874468 45502295 ~ 45504798 (-) False XLOC_016810
TCONS_00032962 mRNA upstream 156033 47587238 ~ 47620806 (-) True XLOC_016827
TCONS_00032963 mRNA upstream 212836 47644041 ~ 47681454 (-) True XLOC_016828
TCONS_00032965 mRNA upstream 438602 47869807 ~ 47870649 (-) True XLOC_016830
TCONS_00032966 mRNA upstream 469301 47900506 ~ 47904090 (-) False XLOC_016831
TCONS_00032967 mRNA upstream 472079 47903284 ~ 47904043 (-) True XLOC_016831
TCONS_00032951 other downstream 30484 47345209 ~ 47348782 (-) False XLOC_016822
TCONS_00032957 other downstream 30490 47348088 ~ 47348776 (-) True XLOC_016822
TCONS_00032955 other downstream 30495 47347109 ~ 47348771 (-) False XLOC_016822
TCONS_00032956 other downstream 30495 47347177 ~ 47348771 (-) False XLOC_016822
TCONS_00032952 other downstream 30509 47346497 ~ 47348757 (-) False XLOC_016822
TCONS_00032960 other upstream 882 47432087 ~ 47464836 (-) True XLOC_016825
TCONS_00032961 other upstream 110532 47541737 ~ 47545639 (-) True XLOC_016826
TCONS_00032964 other upstream 421764 47852969 ~ 47853084 (-) True XLOC_016829
TCONS_00032976 other upstream 713884 48145089 ~ 48157237 (-) True XLOC_016835
TCONS_00032983 other upstream 974067 48405272 ~ 48406205 (-) True XLOC_016843

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000118_00237639_00265842.mRNA True 3049 mRNA 0.48 11 CI01000118 236677 ~ 266174 (+)