XLOC_017376 (vrtn)


Basic Information

Item Value
gene id XLOC_017376
gene name vrtn
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007131.7
NCBI id CM002904.2
chromosome length 55201332
location 27749133 ~ 27755014 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00034565
TCAGTCGCCTGTGATGAGCACGTTGGTTCAACGCACACAATGGATTAAACTTGGAGTTGTGAGAAGGTCTCAGTTTCGCCATACCTGACTACTTTACGGAACTGATTTAAATCTCAGAAGTGGAAAACACAACAAACAAGtTATGATTCAAAGGGCAGAGGCGGTGCTCTCGGTCCTGGGGGAGCTGCAGGAGGCCACGGAGTGTGTGGGTCTTGATGCCCTCACTAAAGTTGCAGTTGAGGTGGAGCAGGCGCTGGCCCCTTTCCCACTTCCTACAGCACCCTGCTCTGAGATCTCCTCATGGCAGGGCATCGACGCAGTGGCTCACAGGCTGTACCCAGGAGATGCACCCACAGGTCTGCTGCCTCTGGTCTGCAAAGGAGAAGGAAACCTGTTGTTTGATGCAGCTAGCATGCTTTTGGTGGGCTCTACGAGTCTGAGTCTGGAGCTGCAAGTCAGGACCGTGGTGGAGATGCTGATTTGGAAGAGGTACTACCTGTGTGGAATGATCGATTCTAAAGTGATGCTGCAAGCTGCCAGATTTTCCCTGTGTGCCGAGGAATCTCAGGATATGCTCAATCTCCCCATTCAGGTGCTGGAGGCCATCTTCGATGCAGATGTCAAGGCCTCATGCTTTCACGGGTCATTTGCAAACATGTGGCATGTGTATGCACTGGCCTCTGTCCTGCAGTGCAACATTTATTCGGTTTATCCCATGTACAATTTAAAGATTCGGCCATATTTCAACAGGCTCATTCGTCCAAGGATATGGTCGAAAGACACAGAACCGTTGACCCTTCACATCATGTGGTCAGGTGACCTGGAGGCAGGCTCCGTTTTCAAACCCCACAAGTTTGTGGCCCTAATTCATGCAAGCGACCTCAAAATTGGGAGCCCCAACAGCGAGCAGCGTATGCCCTTGGTGAAGTCACTGGAGCTTCAAAATCAAGATACTCAGCTGTCTTACTCCAACCTCAAAAACAAGTTCAACATCACCAAGAGCACCTTTTATCGCTGGAAGAGGCAAAGCATCGAGTACCACAAGAAATCAGTGGCAAGGTATGAGGccaaacactttttcctgacgtCCTACAAACAAGGAAAGCTCATTCCCCTCAGCCAGTTTAAAGAACTTTTCCCAGAAATTCCAAGGTCCACGTACTACGCATGGAAGCAAGAGCTTGTGTCCTGTTGTAGCCTCTCAGGCGGCTCTACGGGGGAGTTGAGTCCTGGAGACAGCACTGAACAAGACTACTGGTCCTCACCAGAAGTCAAGAAGACGCCAGGCCAAGGCAGCTTTGCTAACATGTTGGCCTTCAAATATGAGAAACTGGAAGGAGAACGTAACCAAAATGTGACCTTAATGCAAGAGGCGAAGAAGAGTCTGCAGGACTGTATTGTTGCCAACACCTCGTTCCCATACAGAATCTTCAAAAGAAAATTTCCGGGCATCTCTAGATCCACATACTACAACTGGAGGAGGGAAGCCATGCTGTTTATTCCTTTCAAGGAACACTCCGGTAGCAGCGAGGAAGGCTCGGATGCTGACAAATCCCAGAGTCCCAGAAGTCAAATGTCCCCTTCTAAGTTTGACAGACAGAAACTGTCACCAAGAGTGAGGATCTCCAGACGCAAACACAGAAGCCTGAGGCTGGCGTACCACCACAGGAAAATGTTAAGGGAAGAAGCCAAAATGCACATCCGAAGGTCAAAGATGTCCTTCATCAAATTCAAGCTCAAGTTCCCTACGGTTTCCTCCTCTTTCTACTGGCTCTGGAGAGTTTCTTTGAACAGGAAACCTGAAAAGCCTGCTGTGATGTCTAACTCTGAGGAATCCAAGAGCTTGGCCGTTTCGCCAGACGTCTTCCAAAAGATAAAAACTCAAGGAATGTTTTCTTTTGATGGGAACATCGATTGCCTGAATGGACAGACAGAATTCACAATGCCTGAATACTCTCGGCCTGACCAGTCCACTAACGACCATATGTTTGTGATGGATGTTGTGGCGCTGGCCAACTTCAAGGCCAAAGCAAAGCTGTTCTTGCAACAGCGCTTTGAAGAAAAGGCCTTTCCTACATTCAAAGAGTTCCGGTCTTACTTTCCTCTTACTCCTCGTTCCACCTACTACATGTGGAAAAGGGCTCTGCATCACGGGGTGCCTTTAATTCATGCCTGAATGCTGTCACATTCATCACCACTGTAAAATCCAGTAATTAAATCCATATTTGACACTACTAGTTTTTGTGGTTCAcaatccaatgttttttttttttaatctgtttatttttattttttgagtcaCCTAAATATTTGCAGTTCATGCATCTTAATTATCTGTCCCTTTCCTTTGTGTGACCACTTGGTTCTAGCTCAAGGACATTTGCGTGTGTGTGAAATCAGACAGTCTTTGTGTCCTCCTACAGTAAGTGCTGGTGGCCCCCAGGCAAAAGGCAGTTCAAAGACATTATCAGGTTTTCAAATGGCTCTCTTAGACCCCAACCCCCtgaatatttacaatttaaatgaaCTCAGTCAAAAGACAGAGCCTggaacaggtttttttttttttttttttggctttttatttctttaaaatagttcttcttgttttattttattcattttttagctTAAACTATGAAATTTACAATTATGATTTTGTTCTTAATGTATAGTATTTTAATTCATACACTGGagtgtctttatttctttttttatacatatatatttttatactgaCAATTGAATGTGATCTCTGACTGGGACAACTTTAATATGGCCAATTCAAAATTGAATCCTCAAACTTGAATGTTACAGAATTGCTGCTGTTTTGCACATTGTTATTTTGAGCATGTTTCAGTtcacatttcctttttttttcttgctgctAAGGGTGTAAATATTTGCAATCTCGATATTGTTTAAATGTATTGTAAAGTTATTGTGTTCAACTACCTAGCTGATTTTTCACTTTCACTGTTATGGTGTTCTGTGGCTCAGTTCAATTTGTCCAAAAAATAATGCGTTTACAATGTGCTTCTTTTGGTGAATTTAATAAGTGCACTGTTAACTTTGTTAATGTTATCATGTGAAGCATCTCATGTTTGAGGCCAGTTCCTCTGTGCAATAAAATCACTGTTCTCTTTAAGCATTAATGTAATACAATGAGCTTTAACCATCAAGTGTTAACTTAAGTTGTTAATTATAAGCTTTTGAACTGATAATTGTACACTCTggaattaaatcatttattacaaAATGATCATGGAGGAAGcttttgttttataaacacaaCATTGGCTTAATTAAAAGTATGTCTGCATGCATGTTTGAATAAATACCTTTATAATATCA

Function

symbol description
vrtn Enables DNA-binding transcription repressor activity, RNA polymerase II-specific. Acts upstream of or within negative regulation of transcription by RNA polymerase II. Located in chromatin. Is expressed in several structures, including blastodisc; margin; oocyte; tail bud; and yolk. Orthologous to human VRTN (vertebrae development associated).

GO:

id name namespace
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0000785 chromatin cellular_component
GO:0001227 DNA-binding transcription repressor activity, RNA polymerase II-specific molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-060929-700 Enables DNA-binding transcription repressor activity, RNA polymerase II-specific. Acts upstream of or within negative regulation of transcription by RNA polymerase II. Located in chromatin. Is expressed in several structures, including blastodisc; margin; oocyte; tail bud; and yolk. Orthologous to human VRTN (vertebrae development associated).

Ensembl:

ensembl_id ENSDARG00000061963

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00034565 True 3354 mRNA 0.43 2 27749133 27755014

Neighbor

gene id symbol gene type direction distance location
XLOC_017375 NA coding upstream 9314 27735811 ~ 27739819 (+)
XLOC_017374 zbtb1 coding upstream 29035 27712714 ~ 27720098 (+)
XLOC_017373 si:dkey-1h6.8 coding upstream 55266 27691307 ~ 27693867 (+)
XLOC_017372 mthfd1a coding upstream 61676 27646772 ~ 27687457 (+)
XLOC_017371 NA coding upstream 158969 27579744 ~ 27590164 (+)
XLOC_017377 BX255917.1 coding downstream 457 27755471 ~ 27781482 (+)
XLOC_017378 BX255897.1 coding downstream 149231 27904245 ~ 27933000 (+)
XLOC_017379 NA coding downstream 150083 27905097 ~ 28001046 (+)
XLOC_017380 NA coding downstream 357383 28112397 ~ 28129487 (+)
XLOC_017381 dll4 coding downstream 490150 28245164 ~ 28257992 (+)
XLOC_017369 BX255913.2 non-coding upstream 331317 27416520 ~ 27417816 (+)
XLOC_017368 dre-mir-203b non-coding upstream 343171 27405878 ~ 27405962 (+)
XLOC_017365 NA non-coding upstream 376683 27297144 ~ 27372450 (+)
XLOC_017384 NA non-coding downstream 644856 28399870 ~ 28401312 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000325_06007394_06009436 VRTN coding CI01000325 null 6007276 ~ 6010414 (+)