RNA id: TCONS_00066046


Basic Information

Item Value
RNA id TCONS_00066046
length 3045
RNA type mRNA
GC content 0.53
exon number 15
gene id XLOC_033760
representative False

Chromosome Information

Item Value
chromosome id NC_007118.7
NCBI id CM002891.2
chromosome length 74282399
location 27250012 ~ 27454645 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CCAGCGCTCATGGGCTGAGCCGCCCTCCCGGCTCTCCTAATGAATTATTAACTCCAACTGACAAATACTGTTACGGGGCCCTGGCTCAGATCTGTTGCGTTTTGGAGTAAAATTGCTGTAGACACATGTTACAGGAGGATGGAgtcagcctctctctctctctcattctatCATGCCTCAGCAGTTTGACTGATGGCTGGAGACTGAAGGGAAAGGCCTGAGAGACTGAATATTTTAGAGGTAAAATAATACCGCTTGATTTACTGTGTAATACAAAAGAAGTGCTTTGTTTCGCTCGCAGTCCATTGAAGATGAAGGTGGGGGTTGTTGTGCTGGAAGCTCAGGCTCTTTGGATCCATGAATAAAAAATCCCTCTCTCTTGTACTCTTTTTCTGCGCTTTCGCTGCTTCCTCTAGCCGTCGCTGCTGCCGCTTACCCCTTTCGAACTTTGCCTCATACATTTGATTTTCAATTAACGCTCTACAATTTTAGACATCACTTTCTGTTTGATATAATTACAGGAAACAATTTATTGGCTGATTAAAATTGAGGCCTCGGTTTCGCCTTAAGAAAATAGGGCCGCGGATCGGTCTGGGTCTCTAGTGCCTTTCTCTGCACTAACTAACAGACTTTGCTTGTTTGCACAGCTGCGGTATCCCGCTTGATTAacttccattgacttccattgtccACTTCTGTTGGCTGCCGCAGAGCTCATCTAAGACTTCATGGAGAATCATGTCTTCCAAGCAAGCCACCTCTCCATTTACCTCGACCCCTGATGGAGGTGAGGATGGAGTGAATCAGGAGCGTATGCCCTGGGAGAAGGAGGAGAACTCAGAGTCGCTAGTTGCCCCTCAGCTGCCCCTGCACAATCTGCTCCACAACAAACCTCCCCTGGAGGAGCTCCAGCCAATCAGCAGCAGCGTGCCACCCGAATCCGACTGGGACAGCCTGATGTCAGCTCAGCAGCGCATGgaaTCGGACAGCAATAAAGTATGTTCCTTATACTCCTTCCGGAATAACTCTACCTCTCCACACAAGCCAGAGGAGGGGGCCAGGGAGCGTGGCGACCTGCTGAGCAGCTCAGCCTTCGGTACGCCAGAACGCCGCAAAGGAAGCCTGGCCGATGTGGTGGACACACTGAAACAGAAGAAACTGGAGGAGATGACAAAGACAGAACAAGACGAATCCTCCTGTATGGAGAAACTCCTTTCTAAAGACTGGAAAGAGAAGATGGAGCGACTGAACACTGGCGAGCTGTTAGGAGAAATTAAAGGTACTCCAGAAAGTCTTGCAGAGAAGGAGCGACAACTCTCCACCATGATCACACAGCTCATCAGTCTACGAGAGCAGCTTCTGGCAGCCCATGATGAGCAGAAGAAACTGGCCGCCTCTCAGATGGAGAAACAGCGTCAGCAAATGGAGCTGGCACGCCAACAGCAAGAGCAGATCGCCAGACAACAGCAGCAACTTCTGCAGCAACAGCACAAAATCAATCTCCTCCAGCAGCAGATTCAGGTCCAGGGTCACATGCCTCCGCTCATGATCCCCATTTTTCCACACGACCAGCGCACTCTGGCAGCAGCCGCAGCAGCTCAGCAGGGCTTCCTCTTCCCCCCAGGCATGTCCTATAAGCCAGGTGATAACTACCCGGTGCAGTTCATTCCATCCACAATGGCAGCTGCTGCCGCGTCAGGACTCAACCCTCTCCAGCTCCAGCAACTCTACGCCGCCCAGCTGGCCAGCATGCAGGTCTCTCCAGGAGCCAAGATGCCTCCGCTGCCCCAGCCCCCCAATTCTGCTGGGCAGATCTCCCCGTCTGGCTTGAAGAACGAGAAGAGGTCCTCAACCCCCCTGGCTCAAGTCAAGGAGGAGGGAACGCAGCCTCTCAACCTCTCCGCCCGGCCTAAAACAGCTGAGCCCATCAAATCCCCCACATCCCCGACACAGAGCCTCTTCCCAGGCAGCAAGAGCAGCCCCAACAGCCTCTCCAAGAGCGGAGACATACCCAGTCCCATCGGAGGATTGGGCCGCGGCTCGTCTCTGGACATCCTGTCCAGCCTGAACTCGACGGCGCTGTTTGGAGATCAGGACGCAGTGATGAAGGCCATCCAAGAGGCGAGGAAGATGAGAGAGCAGATTCAGAGAGAGCAGCTTCAGCATCATCAGCAGGGAATGGAGGTCAAGCTGTCTGCCCTCACCAGCATGGGCTTGAACAACTGCAGGACAGAGAAGGAGAGGTCTCATTATGACAATCTGGGTCATCACTTGAGCAAACTTGGTGAAGATGGAAAGATTGGTCATAGAGTCATTGACCTCACCAGGCCAGAAGACTTTGAGGGAGGCGCCAGCACTACCGAGGCACGGGTCTACAGGGAACCCCGGGGAAGGAACAGCAACGAACCTCACATCAAACGGCCCATGAACGCCTTCATGGTCTGGGCCAAAGATGAGCGCCGCAAAATCCTTCAGGCCTTCCCAGACATGCACAACTCCAACATCAGCAAAATCTTGGGATCTCGCTGGAAGTCTATGACGAACCAGGAGAAACAACCGTATTACGAAGAGCAGGCACGGCTCAGCAAGATCCACCTGGAGAAATACCCCAACTACAAGTACAAACCCAGACCCAAGCGCACCTGCATCATCGACGGCAAGAAGTTGCGCATCAGCGAGTACAAGCAGATGATGAGGTCACGGAGACAAGAGATGAGGCAGTTCTTCACTGTGGGGCAGCAGCCACAGACGCAGATCCCCATCACCACCAGCGCAGGCGTTGTGTACCCGGGTGCCATAACCATGGCCACCACAACGCCATCCCCGCACATGACGTCAGACTGCTCCAGTGCCTCGGCCAGCCCTGAACCCACCATCCCCGTCATCCAGAGCACCTTCAACATGAAGATGGAACCGGGTACCATGGTGCCCAGCGACGCAGTGAACGGAGAGGACGAGATGGACATGTACGAGGACTTTGAGGACGAGCCCAAATCGGACTACAGCAGTGAGAATGACACACATGAGCCGGTCAGTGCCAACTGA

Function

GO:

id name namespace
GO:0042694 muscle cell fate specification biological_process
GO:0060612 adipose tissue development biological_process
GO:0032332 positive regulation of chondrocyte differentiation biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0007519 skeletal muscle tissue development biological_process
GO:0045165 cell fate commitment biological_process
GO:0045892 negative regulation of transcription, DNA-templated biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0007417 central nervous system development biological_process
GO:0005634 nucleus cellular_component
GO:0003677 DNA binding molecular_function
GO:0000976 transcription regulatory region sequence-specific DNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-081120-6 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 adipose tissue development; muscle cell fate specification; and skeletal muscle tissue development. Predicted to be active in nucleus. Is expressed in fast muscle cell; myotome; pharyngeal arch 3-7; and somite. Human ortholog(s) of this gene implicated in high grade glioma. Orthologous to human SOX6 (SRY-box transcription factor 6).

Ensembl:

ensembl_id ENSDART00000193058

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00068855 lncRNA upstream 268717 27044529 ~ 27048457 (+) True XLOC_033758
TCONS_00066033 lncRNA upstream 273174 27041373 ~ 27044000 (+) True XLOC_033756
TCONS_00066027 lncRNA upstream 440860 26859488 ~ 26876314 (+) False XLOC_033754
TCONS_00066022 lncRNA upstream 560992 26750471 ~ 26756182 (+) True XLOC_033752
TCONS_00066014 lncRNA upstream 701004 26611727 ~ 26616170 (+) True XLOC_033748
TCONS_00068856 lncRNA downstream 5945 27455327 ~ 27564988 (+) False XLOC_033761
TCONS_00068857 lncRNA downstream 5952 27455334 ~ 27603243 (+) False XLOC_033761
TCONS_00066053 lncRNA downstream 348439 27797821 ~ 27799035 (+) True XLOC_033762
TCONS_00068858 lncRNA downstream 373062 27822444 ~ 27832323 (+) False XLOC_033764
TCONS_00068859 lncRNA downstream 374149 27823531 ~ 27832323 (+) False XLOC_033764
TCONS_00066035 mRNA upstream 85582 27059330 ~ 27231592 (+) False XLOC_033759
TCONS_00066037 mRNA upstream 86180 27220655 ~ 27230994 (+) False XLOC_033759
TCONS_00066038 mRNA upstream 95205 27220658 ~ 27221969 (+) True XLOC_033759
TCONS_00066031 mRNA upstream 273161 27041315 ~ 27044013 (+) False XLOC_033756
TCONS_00066029 mRNA upstream 295871 26998169 ~ 27021303 (+) False XLOC_033755
TCONS_00066049 mRNA downstream 5939 27455321 ~ 27695613 (+) False XLOC_033761
TCONS_00066051 mRNA downstream 153829 27603211 ~ 27695673 (+) False XLOC_033761
TCONS_00066052 mRNA downstream 242265 27691647 ~ 27697234 (+) True XLOC_033761
TCONS_00066054 mRNA downstream 353098 27802480 ~ 27820976 (+) True XLOC_033763
TCONS_00066056 mRNA downstream 384748 27834130 ~ 27887883 (+) False XLOC_033766
TCONS_00066036 other upstream 180528 27059394 ~ 27136646 (+) False XLOC_033759
TCONS_00066032 other upstream 273171 27041364 ~ 27044003 (+) False XLOC_033756
TCONS_00066034 other upstream 273332 27043715 ~ 27043842 (+) True XLOC_033757
TCONS_00066028 other upstream 425032 26888410 ~ 26892142 (+) True XLOC_033754
TCONS_00065996 other upstream 1196438 26120631 ~ 26120736 (+) True XLOC_033735
TCONS_00066050 other downstream 5958 27455340 ~ 27660728 (+) False XLOC_033761
TCONS_00066055 other downstream 376563 27825945 ~ 27826061 (+) True XLOC_033765
TCONS_00066057 other downstream 398628 27848010 ~ 27879593 (+) True XLOC_033766
TCONS_00066060 other downstream 463556 27912938 ~ 27913055 (+) True XLOC_033768
TCONS_00066065 other downstream 804262 28253644 ~ 28255177 (+) False XLOC_033769

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000026_03163505_03268602.mRNA True 6205 mRNA 0.44 14 CI01000026 3163505 ~ 3268602 (+)