XLOC_006096 (six6a)


Basic Information

Item Value
gene id XLOC_006096
gene name six6a
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 31583034 ~ 31606247 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00012027
AATTATCATCCTGAGAGAAACAGCCATGCACATTCAGAACACTTTCTGTATTAATGTAGCCTATGAGGAGTGAAAGAGCAGTCTATTATTACGGCTTAACAAAAAGAGGGGCGAGACAGACGAGGAACAGCACCAGACAGGAGGACCAAAGGAGAGAGACATTACAGTCTCCATGTTCCAGCTGCCCATTTTGAATTTCAGCCCTCAGCAGGTCGCGGGGGTCTGTGAGACGCTCGAGGAGAGCGGAGACGTGGAGAGGCTCGGCCGCTTTCTCTGGTCACTCCCGGTGGCGCCGTCCGCCTGCGATGTGCTCGGAAAGAACGAGTCTGTCCTGCGCGCGCGCGCGGTCGTGGCCTTTCACGCGGGCAACTTCCGCGAGCTCTACCACATACTAGAGAACCACAAATTCACCAAAGACTCACACGCAAAACTGCAGGCGCTCTGGCTCGAGGCGCATTACCAGGAGGCTGAGAAACTCCGTGGGCGTCCGTTAGGACCCGTGGACAAGTACCGCGTCCGAAAGAAGTTTCCACTGCCCAGGACGATATGGGACGGGGAACAGAAAACGCACTGCTTTAAGGAAAGAACGCGGCATCTGCTGAGAGAGTGGTACCTGCAGGACCCTTACCCAAATCCCAGCAAAAAAAGAGAACTGGCGCAGGCGACTGGACTCACACCCACGCAAGTGGGCAACTGGTTTAAAAACCGGAGGCAAAGGGACCGAGCGGCAGCGGCCAAGAACAGGCTACAGCAGCAAGTTCTGTCCGGTGGCTCGGTCCGATCGCTGGGGGACGATGACACCACAGTAGACCGCCTGGGTCCCGCCTCAAGCCCAGAAGTCAGTCTCTCGAGCAAGGCCGCCACCTCCGCCATCTCCATCACCTCCAGCGACAGTGAATGTGACATCTAACGTGACAGGCTTCAAAAGAGCAAACCGAAGAACTGTAAGAGAcaatctcacaaaaaaaaaaaaa
>TCONS_00012028
ATCAAAGAAGAGATTTTGCCGTTCAGGCTGCTTGAGCCTGCCGCACGGCACCGCTCCTCGGCGCGTTTTGTGACACGGCTGTTAACTTTTGCCGTTTTCTGACAGACAGGCTTAACAAAAAGAGGGGCGAGACAGACGAGGAACAGCACCAGACAGGAGGACCAAAGGAGAGAGACATTACAGTCTCCATGTTCCAGCTGCCCATTTTGAATTTCAGCCCTCAGCAGGTCGCGGGGGTCTGTGAGACGCTCGAGGAGAGCGGAGACGTGGAGAGGCTCGGCCGCTTTCTCTGGTCACTCCCGGTGGCGCCGTCCGCCTGCGATGTGCTCGGAAAGAACGAGTCTGTCCTGCGCGCGCGCGCGGTCGTGGCCTTTCACGCGGGCAACTTCCGCGAGCTCTACCACATACTAGAGAACCACAAATTCACCAAAGACTCACACGCAAAACTGCAGGCGCTCTGGCTCGAGGCGCATTACCAGGAGGCTGAGAAACTCCGTGGGCGTCCGTTAGGACCCGTGGACAAGTACCGCGTCCGAAAGAAGTTTCCACTGCCCAGGACGATATGGGACGGGGAACAGAAAACGCACTGCTTTAAGGAAAGAACGCGGCATCTGCTGAGAGAGTGGTACCTGCAGGACCCTTACCCAAATCCCAGCAAAAAAAGAGAACTGGCGCAGGCGACTGGACTCACACCCACGCAAGTGGGCAACTGGTTTAAAAACCGGAGGCAAAGGGACCGAGCGGCAGCGGCCAAGAACAGGCTACAGCAGCAAGTTCTGTCCGGTGGCTCGGTCCGATCGCTGGGGGACGATGACACCACAGTAGACCGCCTGGGTCCCGCCTCAAGCCCAGAAGTCAGTCTCTCGAGCAAGGCCGCCACCTCCGCCATCTCCATCACCTCCAGCGACAGTGAATGTGACATCTAACGTGACAGGCTTCAAAAGAGCAAACCGAAGAACTGTAAGAGAcaatctcacaaaaaaaaaaaaactttagtgcCTGCAACCGGCCCAAAGATAGGCTAAAATGAAAGATGGACGAAAACCATTACACACTTTCATTTCCCATTCGTTGATTTGATCGAAATGGGCAGTGCTTCTCACGAAGACAGAAAAAGGGAGTATTTGGGGGAAAAGCATCTGAGGGTCGAGCTTATTATTGTATGTGTGCATACTTTATCACGAAAAGACTgaataatgttttaatgtttgtcttttttaatatataaatgatgtttatttgcttatttataatA

Function

symbol description
six6a 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 gene expression and neural retina development. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Is expressed in several structures, including eye; gill; heart; integument; and kidney. Human ortholog(s) of this gene implicated in optic disc anomalies with retinal and/or macular dystrophy. Orthologous to human SIX6 (SIX homeobox 6).

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0003407 neural retina development biological_process
GO:0007275 multicellular organism development biological_process
GO:0048856 anatomical structure development biological_process
GO:0045892 negative regulation of transcription, DNA-templated biological_process
GO:0001654 eye development biological_process
GO:0005634 nucleus cellular_component
GO:0005667 transcription regulator complex cellular_component
GO:0003677 DNA binding molecular_function
GO:0000976 transcription 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-040426-1282 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 gene expression and neural retina development. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Is expressed in several structures, including eye; gill; heart; integument; and kidney. Human ortholog(s) of this gene implicated in optic disc anomalies with retinal and/or macular dystrophy. Orthologous to human SIX6 (SIX homeobox 6).

Ensembl:

ensembl_id ENSDARG00000025187

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00012027 False 974 mRNA 0.55 3 31583034 31605982
TCONS_00012028 True 1255 mRNA 0.52 2 31603988 31606247

Neighbor

gene id symbol gene type direction distance location
XLOC_006095 ppm1aa coding upstream 2844 31545530 ~ 31580190 (+)
XLOC_006094 pcnx4 coding upstream 47526 31520537 ~ 31535508 (+)
XLOC_006093 lrrc9 coding upstream 68884 31497236 ~ 31514150 (+)
XLOC_006092 lrrc9 coding upstream 88747 31479814 ~ 31494287 (+)
XLOC_006091 lrrc9 coding upstream 103233 31473190 ~ 31479801 (+)
XLOC_006097 mnat1 coding downstream 42024 31648271 ~ 31681951 (+)
XLOC_006098 slc38a6 coding downstream 81726 31687973 ~ 31707870 (+)
XLOC_006099 prkcha coding downstream 110573 31716820 ~ 31748970 (+)
XLOC_006100 hif1aa coding downstream 151084 31757331 ~ 31783663 (+)
XLOC_006101 NA coding downstream 200273 31806520 ~ 31850508 (+)
XLOC_006074 NA non-coding upstream 654373 30920554 ~ 30928661 (+)
XLOC_006071 CR762493.1 non-coding upstream 746258 30836656 ~ 30836776 (+)
XLOC_006067 NA non-coding upstream 905391 30676825 ~ 30677643 (+)
XLOC_006065 AL844152.1 non-coding upstream 1071311 30511607 ~ 30511723 (+)
XLOC_006063 AL929330.1 non-coding upstream 1331177 30251741 ~ 30251857 (+)
XLOC_006102 NA non-coding downstream 348973 31955220 ~ 31978484 (+)
XLOC_006103 NA non-coding downstream 499018 32105265 ~ 32108472 (+)
XLOC_006105 CR769766.1 non-coding downstream 786136 32392383 ~ 32392499 (+)
XLOC_006111 CR936241.1 non-coding downstream 1240246 32846493 ~ 32846609 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000012_08489570_08491016 SIX6, SIX6A, SIX6B, SIX6.L coding CI01000012 null 8489098 ~ 8492326 (-)
bowfin (Amia calva) AMCG00000553 six6,six6a,LOC107743981,LOC106598791,LOC107588601 coding CM030141.1 CM030141.1 18480371 ~ 18483206 (+)