RNA id: TCONS_00007898


Basic Information

Item Value
RNA id TCONS_00007898
length 3955
RNA type mRNA
GC content 0.44
exon number 2
gene id XLOC_004134
representative True

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 24187610 ~ 24191928 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

AGGGGGGGCGTCTCTACAAAGAGGCAGGAGGAACGGCAGACGAGGATAGAGAGAGTGACGGAGAGGATAGAGAGCGTCTGAGAGAGAGGATCCGCATGCGGGACAGAGGAAGAAAACAGCAGGCAGACGCTGGACAGCTTTTTTTTTGACTTGCACCACAACTGCTACAGCAGAGGAAATGCTTATATGAAGAGAAAAAGTAATTGTGCATAGTAAGCAGAAGCTGTCTTCGCTTGTATTGATAAAAGCAGGAATTGGTGAGTTGCTGCATCTTAGAGTGTCTCGTCATGGATGACTCTAGGGAACCTACTGAATAGATCTCAGCGCTGCATCATGGTTCAGCAAAGAACCCACAAATACTCGTCAGTCATGGACAGCAATTCAAGCAGAGAGGTGTTTGTGGGACTGGCGGCTGAGGACGATGCTGAGGTGTTTGGACATGTACCTTCTAACAAAGACCCCAACTGGTGCAAAACTCCAACTGGGCACATCAAAAGACCAATGAACGCTTTTATGGTCTGGTCTCAGATTGAAAGACGGAAGATCATGGAGCAATGGCCTGATATGCACAATGCTGAGATTTCAAAGCGCCTTGGGAAACGCTGGAAACTACTGCCTGACTATGAGAAGATACCCTTTATCAAAGAGGCCGAAAGACTGCGTCTAAAGCACATGGCTGACTATCCTGACTACAAGTACCGGCCCAGGAAGAAAAGCAAGGGCTCAACCCCTGTCAAACTTGGCGAGAAGTTGCCTATGAAATCCAGCAAGCCCCTTCCAGGAAGATCTTCCGGGCTCTCCTGCAAAGGGCTTAAGATCAAACCTGCTTCTTCAAAGCATAAAATGAACTTTAGTAGCAATAAATACAAGAGCTACAGTGAGAGCATGAGCGACGACGACACCATGGATGTAAACCTAGAAAGTCCAGTGACTCAGCAAGACGATCGCAACACGTCAAGTCACTTTGTCCTTCACCAGCAGGCTACTGTTCAATCTGAGGACCAGCAACCAATTCCTGAGCTCAGAGTGAAAGTACCCATCTCTCAAACCAGCAGCATCCAGAGTCTCTCCTCGGACAGCGAATGCCAGGCTTTCCCAGAGTCCACGACGAGCGAACCACGAGGGTCCACATCTGGAAGATCTTCCACTCCGACCTCGACCAGCTCCTCCTCTTTGGTGTCGTCAGCATGTTCGGATGAGGAACTGGACGAGGAACTCTTGCATATAATTTCCAACAGTATGCCTATGGACTGTTCCACTCTGGACAAGGACTTTGAAGCATTTAACGCCAACTCAGGATCTCATTTTGACTTCCCAGATTACTGCACTCCAGAGGTGAATGAAATGATTTCTGGAGACTTGCTCGTGCCCAGCATCTCAGACCTAGTGTTCACCTACTGAATTTGAGTCTTCGTAATGTGGTCAGGCCTGCATAGCTGCCAAGTTGAAAATATGTTGTCCATGTTGTACTTGGACAATTCCTTTTTTTCCATGTGTTTATTTTTCTCAATGAATTCCGTAAGTGCTATTGCTTTCCTTTCCAAGCATGTCACATCTTGTTGGTTTAgcgaacacacacacaggggTTTGCAGAGCTGTTCGTCAGAGAAGACATTTAGATTTTGTTTAACACTTCAGAAGCAGCAGGGTGTAATTCTTGGAGAAAATGTCTCTCACCAGCTGTTTTTAAACTCCAAGTATCTTAATGGGAAGCAAAgatcaaacaaaaatgacaattttgtcaTCGTTTATTCACCtgcatgactttctttcttcacGAAATGCTAACATTTGAAGAACGTGTCAGATGTTTTAGTCCAATTAATGGGCCAAAACTACACTGGACACTACCAACTTTCAATGTGTGAGCATTCCACAAAACCCTCATCTTTTATAGTCCACAGAAGGCCATGGGTGATGACAATTTCCGTTTTTCTGTGAACTAGCCCCATTATATGCAGCACTGTCATCTTCAAGACTGCTCATAACACAAACTCTTAAtctttattaaatcaaatataatttccTTCAAAGTTGTGCACATGTCGGCTGACAGTGTTGGTGCATTAATATCCTAAAACACTGAGGCAGAAAAGATGAGTGAAATCTTCCCACAGCACTTACAGTAAAGCATCAGTAACCTTGCAGAGGAAATCACTGCAGACACATAATTCATATCATATACTTTAATTAGGTAATAGCACTTTCATCACCTTGCCATTGCTGCAGACATTAAGACACATGTGTGATTTAAAGGCAGCTCTGCATCGGCCCAgggtgcaggtgtgtgtgtgtgtctgtgtgtgtcaatGTGTGCCTGAACTGTTTGGACAAAAGAGGGATAAGGTTAGGGTTTGGGCGGGGGGGTTGGTTCTTTCAGGGAACTGTGCATCTGTCCATGCAGGCAGCAGCTTTTATGCAGGGGTCGGGCTCTGCGCTTACCGAGCGTCTGCTGGGGTGGGGAGGTGTGTGAGGGGGGGGGGCTCCTGCACCGGTTCGCTGAAATGCATGTCATGTCTGCAGTCTGGCTGCAGCTGCCCCGATCAGGGCGAGAAATCTGTGTCTGCCAGCTGGCCCCCATTGACTCTCTCAGGGATCGTTTGTCTAGGTCCTAGTGCCTCCCGTAGGTAATTCATCTGTGAtgatctgtgtgcatgtgtgtgtgtgtgtgtgtgagagcgtcTCTTTCTCTCCCGGAGAAACCATCCAAAGCCAACTGAAGTGACTGAATGCCCTGATTTCTCAAAAAAGGAAGATCCGTCctctgttttctttttatttcaccCACATGCTCTTATTAATTTCAGTTCAGTTGGCGCCCGGGAGACCGGCATTATTTACCTCCCACCAACAGTTGTCAGAGAAGGGACAACAAACCCTGCAGTTCATATCTTACATAAACTGTTAATCCTCGTCGATTCGAGACGTCCTGTGAAGATGCGGCGGCATGCTGTGCAAAGTGAAGGAACACAAAAGGAAAGGGACACGCTGTGTGTTTGCTCTTGGTTTAACCTCACTGTTTGGACTGCATAATGACTACTTTTGTCACATTGACCACAGAGGCATACAACAGCCTGTGTTTCCTTATTGTAGGAAAGAGTTGACTAGACCAGTATTTTTTCTAACCCATGATAGTTTGCAAAAATCTTAGTTTTATCAAGTGGTTTTTAGAATGACAGAACTACACATGTACTTCAGGTATCTGTATTCCAGCCGAAAAGAGAAATGGCGTCAACCAAGAGGGCTGTCAGGAAAGATGGACGCCATTTGTGATATGAGGCCTTcattcataaaacacaaacatgagGATTTCTTTCAGCTTGTAAAAAAACATTGCCTCGACGTGTATGTATAGCACAGACAGATTTAGTGCTGTAAAACGGAAATGTTGGCATTTTAAATGCTCAAAATTGTAGAAACTGTAGAAATACCGCAAGTTATTGGAAACTGGCATTGTCTTTGTAATGCAAAAAGGTCATTTGTATTAtgaaaaaccaaaatcaagtttGCATGTGTCATGTGAATAGATACAACAAAAGGCTTGGGCCTTCAACAATCATCAGGGAAATTATTTCAGGAAAGCGACACGTTCACTATTTTGGAAGATTCAGCGCTACTGAAATTGTGAGATGGCTCGTCATACCTGAAGCTCACAAACAGGAACCAGTCTTTGCATTAAGACGTTTGTAAATCAAATCTGTCTCTGTACACTCTTGAATTGTATCAGGTCACACACTGAACCAATACAGTACCAAACACCAGCAGTCAATCTAACGGACTCAGGACTAAAAACATCAGCCCACTGTGGATCTGCTTTGATTCAGCCATTACTAAAATGCACTCTGTTTGGCCATTGTATGTCATTGTAGATGATCTGCAAAAGAACTGTATGTAGCATCAAAGGTCAATTTGCAAAGTTGtacctttttaaatattaaatattttaaaaacgtcA

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0030154 cell differentiation biological_process
GO:0009653 anatomical structure morphogenesis biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0005634 nucleus cellular_component
GO:0001228 DNA-binding transcription activator activity, RNA polymerase II-specific 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-040724-33 Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in anatomical structure morphogenesis; cell differentiation; and positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Orthologous to human SOX12 (SRY-box transcription factor 12).

Ensembl:

ensembl_id ENSDART00000136827

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00007896 lncRNA downstream 170815 24016063 ~ 24016795 (-) True XLOC_004132
TCONS_00007894 lncRNA downstream 171225 24015236 ~ 24016385 (-) False XLOC_004132
TCONS_00007889 lncRNA downstream 286249 23900000 ~ 23901361 (-) False XLOC_004131
TCONS_00007890 lncRNA downstream 286265 23900409 ~ 23901345 (-) True XLOC_004131
TCONS_00008794 lncRNA downstream 661999 23498265 ~ 23525611 (-) True XLOC_004128
TCONS_00008469 lncRNA upstream 517856 24709784 ~ 24712223 (-) False XLOC_004140
TCONS_00008470 lncRNA upstream 517856 24709784 ~ 24712551 (-) False XLOC_004140
TCONS_00008795 lncRNA upstream 519191 24711119 ~ 24714275 (-) False XLOC_004140
TCONS_00008471 lncRNA upstream 519876 24711804 ~ 24712922 (-) False XLOC_004140
TCONS_00008472 lncRNA upstream 521041 24712969 ~ 24714293 (-) True XLOC_004140
TCONS_00007897 mRNA downstream 124414 24058530 ~ 24063196 (-) True XLOC_004133
TCONS_00007891 mRNA downstream 170797 24013769 ~ 24016813 (-) False XLOC_004132
TCONS_00007892 mRNA downstream 170812 24013861 ~ 24016798 (-) False XLOC_004132
TCONS_00007895 mRNA downstream 170849 24015269 ~ 24016761 (-) False XLOC_004132
TCONS_00007893 mRNA downstream 171765 24014141 ~ 24015845 (-) False XLOC_004132
TCONS_00007899 mRNA upstream 153769 24345697 ~ 24347644 (-) True XLOC_004135
TCONS_00007900 mRNA upstream 168816 24360744 ~ 24428319 (-) False XLOC_004136
TCONS_00007901 mRNA upstream 168843 24360771 ~ 24428237 (-) True XLOC_004136
TCONS_00007902 mRNA upstream 237995 24429923 ~ 24458786 (-) True XLOC_004137
TCONS_00007903 mRNA upstream 272428 24464356 ~ 24511335 (-) False XLOC_004138
TCONS_00007888 other downstream 532132 23655350 ~ 23655478 (-) True XLOC_004130
TCONS_00007873 other downstream 1028303 23159189 ~ 23159307 (-) True XLOC_004123
TCONS_00007863 other downstream 1588055 22597114 ~ 22599555 (-) True XLOC_004120
TCONS_00007852 other downstream 2435021 21752475 ~ 21752589 (-) True XLOC_004115
TCONS_00007850 other downstream 2602449 21579926 ~ 21585161 (-) True XLOC_004113
TCONS_00007910 other upstream 333748 24525676 ~ 24532958 (-) True XLOC_004138
TCONS_00007913 other upstream 775843 24967771 ~ 24967887 (-) True XLOC_004142
TCONS_00007916 other upstream 1013225 25205153 ~ 25205243 (-) True XLOC_004144
TCONS_00007927 other upstream 1284171 25476099 ~ 25476185 (-) True XLOC_004150
TCONS_00007928 other upstream 1336629 25528557 ~ 25532480 (-) False XLOC_004151

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000306_02311430_02312497.mRNA True 2073 mRNA 0.42 1 CI01000306 2310592 ~ 2312664 (-)
rainbow trout (Oncorhynchus mykiss) TU722955 True 5510 lncRNA 0.45 2 NC_048571.1 65586672 ~ 65592248 (+)