XLOC_006750 (rtf1)


Basic Information

Item Value
gene id XLOC_006750
gene name rtf1
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007124.7
NCBI id CM002897.2
chromosome length 52186027
location 33229446 ~ 33246154 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00012999
GTGGAGGAGTGCGGCGctgctgtttaaacacacacacaggggagccAGGCAGCTAACCATGGTGAATGTAAAGAAACGGAAAGGTCGGGTCGTGATTGACTCCGACTCGGAGGATAGTGCGAGCGATGATAATTTGGATCAGgaGCTGCTGTCTCTTGCCAAAAGAAAGCGTGTGGATTCTGATGAACAGGAAGAGCCTGTTAGTAAACCTGCCGCCTCCACTGACTCTGAGACATCAGACAGCGATGATGAGTGGACTGTTGGAGGCACTAAAACCAAAAAGAAGGGGAAACCGAGCAAAGGGCCTGAAAAGAAGAACACAGTCAAGAAAAGAAAGGGCAAagcagcttcatctggcagctcaAATGGAGACAGTTCAGGAGAGAGTTCAGCTCCAGAGGAAGgtGAAGTGTCAGACTCTGACAGTAACAGCTCATCCTCCAGCTCGGATTCTGACTCTTCATCTGAGGATGAGGTTTTCCGGGACGGTTATGGAGATGATCTAATGGGGGATGAGGAGGACCGGGCACGTTTGGAGCAGATGACAGAAAAGGAAAGAGAACAGGAGCTGTTCAACCGTATAGAGAAGAGAGAAGTCCTCAAGAGGAGATTTGAAATTAAGCAAAAATTGAAGACGGCAAAGAAGAAGGAAAAggaagagaagaagaagaaacaagaGGAGGAGCAGGAAAAGAGAAAACAGTCTCAGGTCCCAGACACTCAGGTGGTGATGTCCCATAACAAAGAGAGACGGATAAAAAGAGATGAGAAGCTGGACAAGAAATCACAGGCCATGGAAGAGCTGAAAGCAGAAAGAGAAAAGAGGAAAAACAGAACTGCTGAGCTCCTTGCAAAAAGGCAGCCACTTAAGACAAGCGAGGTCTACTccgatgatgaagaggaggaggaagatgacGATGACAAGTCTTCAGTAAAGAGTGACCGCAGCTCAAGGTCTTCATCGtttgatgaagaggaggaAAAAGAGGAAGCTCCACCCAAATCCCAGCCTGTCTCATTACCAGACGAGCTGAATCGGATCCGGTTGTCTCGGCACAAGCTTGAGCGCTGGTGTCACATGCCATTCTTTGCCAAAACAGTCACTGGCTGTTTTGTTCGAATTGGCATTGGAAACAGCAGCAACAAGCCCGTTTATCGGGTGGCTGAAATCATTGACGTAGTGGAGACCGCTAAAATCTATCAGCTAGGATCCACACGAACAAACAAAGGCCTTCAGCTCCGACATGGAAATGACACACGGGTCTTCAGACTTGAGTTTGTGTCCAATCAGGAGTTTACTGAAAGCGAATTTATGAAATGGAAAGAGGCGATGATGATCGCAGGAATGCAGCTTCCTACTCTGGATGAGATCAACAAAAAAGAGCAGTCCATCAAGGAGGCCGTCAACTACAAATTCAATGACAAAGATATTGAGGATattgtcaAAGAGAAAGACAGATTCAGAAAGGCGCCACCAAACTACGCCATGAAGAAAACGCAGCTTCTTAAAGAGAAGGCCATGGCTGAGGAGAGCGGAGATGGAGACAAAGCGAAAACACTTCAAGATCAGTTGAATGAGCTGGAGGAGAGAGCAGAAGCACTTGACAGACAGAGAACCAAAAACATCTCTGCCATCAGctATATCAACCAGAGGAATCGGAGCTGGAACATTGTAGAGTCTGAGAAGGCCTTGGTGGCCGAAGGTCAGAACTCAAAGAACCAGCAGATGGACCCCTTCACCAGACGGCAGTGTAAACCAACTATGGTGTCTAATGCAAGAGATCCCTCAGTCCATGCCGCTATTTTAGCTCATCTAAACCAGAAATACGGTTCAGGCTCGGGCGCGGGCCAAGACAACAGCCAGCAGGCCAATAAACAGTTGGGCCAGGCTAGCCAGAAAGACAAAGACGTTACAAAACCGACCAGCGACCTCTCAGAGGACCTTTTCAAAGTTCATGACTTTGATGTCAAGATTGACTTACAGGTTCCTAATGCTGAAGCAAAATCTCTCTCAGTGAGTTCAAATGCATTGCCTGTTAAAGATGGAGCACCACGCCGATCTCTCAACCTGGAGGACTACAAGAAGAGACGAGGACTCATCTGACCGATGTTTCTATCCTCCCTTGCATGAGTGGACACCTGTGCTGAGAGTGTGAAGCTGTGGccacccctgtgtgtgtgtgtgtgggcgtggGCGTGGGCGTGGGCGTGGGcgtgggcgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgggagagagagagagagagaaagaaagagagagagtgtgtatgaTAAAGAGAGAGTAAGTGCTCACCTTTAAGACTGAGAGACTGTGTAAGTGTGTACGTTTCACCTGTTTGTAAGAGGAAATACTCATAAATAATGACAACTTTCAGGTCTTTTCCTGCAAAGGGTCACCTTTTTTTGAGAGCTGAAAAGTCCTCTGCGTTATTTACAGCGTGTGCTGTCTCGAGAACAGAAATGCATTACCTCTGATTCTCCGTTTCATACCAATGTATGCAGCATATTTTCCTCCCTCTCAGACCCTCACAGAAACCACCCTTTTATATCCAAGCTTGTGAATGACTATCTCAAAGGACACTATCAAAACAAAAAAGAGGACACAAATCTTGGGTTATTTTTTTCTGGAAAGTTATTAGTTGTCGATATTGATGATTGGGTCTGCCTCGCTTTCTCGTTCCTCTTCAAGAAGCTCTGAGTTTTTCAAAAGAAATGAAAATCCTTTTTTCTCTCCCACACCCGCGTGTAACTCTGCTTGCCGGTTTAGAGGCCAAGGGCTCGACCAATCAAAGGGGGAGTCTGACAATGACATCACACTCCCTAAAGATAAACGTTTGTTTTCACGTGAGACAATGATTGACTAAACGTGGctgccatgttcaagaaaacaaTGAGAATcgatgtatgtttttgtttttactgctctTTTTCTTCCATATCCCTCTGTCTCACTCGGAGCTGATGTAAGTGTTATTGATCATTAATTATTGATGAAGTCTTTTAGTCAGTTCTGTATCGTGGCATGCATTGTAAATAAGCGATCTTGAGTGAGtgcggctgaataaaggaggAACTTTTCGTAA

Function

symbol description
rtf1 Predicted to enable RNA polymerase II C-terminal domain phosphoserine binding activity. Acts upstream of or within several processes, including neural crest cell development; post-anal tail morphogenesis; and somitogenesis. Located in nucleus. Orthologous to human RTF1 (RTF1 homolog, Paf1/RNA polymerase II complex component).

GO:

id name namespace
GO:0007507 heart development biological_process
GO:0001756 somitogenesis biological_process
GO:0036342 post-anal tail morphogenesis biological_process
GO:0014032 neural crest cell development biological_process
GO:0043473 pigmentation biological_process
GO:0005634 nucleus cellular_component
GO:0016593 Cdc73/Paf1 complex cellular_component
GO:0003677 DNA binding molecular_function
GO:1990269 RNA polymerase II C-terminal domain phosphoserine binding molecular_function

KEGG:

id description
ko03021 Transcription machinery

ZFIN:

id description
ZDB-GENE-030131-6778 Predicted to enable RNA polymerase II C-terminal domain phosphoserine binding activity. Acts upstream of or within several processes, including neural crest cell development; post-anal tail morphogenesis; and somitogenesis. Located in nucleus. Orthologous to human RTF1 (RTF1 homolog, Paf1/RNA polymerase II complex component).

Ensembl:

ensembl_id ENSDARG00000008947

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00012999 True 3122 mRNA 0.46 18 33229446 33246154

Neighbor

gene id symbol gene type direction distance location
XLOC_006749 golga5 coding downstream 2035 33211014 ~ 33227411 (-)
XLOC_006748 fbln5 coding downstream 22022 33155428 ~ 33207424 (-)
XLOC_006747 TC2N coding downstream 75557 33141279 ~ 33153889 (-)
XLOC_006746 plek2 coding downstream 94835 33123484 ~ 33134611 (-)
XLOC_006745 zfyve26 coding downstream 114512 33066605 ~ 33114934 (-)
XLOC_006751 nusap1 coding upstream 5567 33251721 ~ 33256667 (-)
XLOC_006752 NA coding upstream 14977 33261131 ~ 33301170 (-)
XLOC_006753 tmem234 coding upstream 68519 33314673 ~ 33317398 (-)
XLOC_006754 si:dkey-71p21.13 coding upstream 73909 33320063 ~ 33321541 (-)
XLOC_006755 zgc:172120 coding upstream 96301 33342455 ~ 33362191 (-)
XLOC_006471 BX537274.2 misc downstream 22964541 10264741 ~ 10264905 (-)
XLOC_006338 rn7sk misc downstream 32403221 825904 ~ 826225 (-)
XLOC_006741 NA non-coding downstream 232950 32946711 ~ 32996496 (-)
XLOC_006738 CU019663.1 non-coding downstream 421805 32793864 ~ 32807641 (-)
XLOC_006731 NA non-coding downstream 662190 32457931 ~ 32567256 (-)
XLOC_006732 NA non-coding downstream 734574 32492067 ~ 32494872 (-)
XLOC_006730 NA non-coding downstream 773453 32069898 ~ 32455993 (-)
XLOC_006757 NA non-coding upstream 206284 33452438 ~ 33463644 (-)
XLOC_006758 NA non-coding upstream 211369 33457523 ~ 33459318 (-)
XLOC_006768 BX649403.1 non-coding upstream 1392475 34638629 ~ 34638746 (-)
XLOC_006769 BX649403.2 non-coding upstream 1397996 34644150 ~ 34644281 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000012_07409605_07427042 RTF1 coding CI01000012 null 7408992 ~ 7427309 (+)