XLOC_004134 (sox12)


Basic Information

Item Value
gene id XLOC_004134
gene name sox12
gene type coding
species zebrafish (Danio rerio)
category of species model fish

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

Sequence

>TCONS_00007898
AGGGGGGGCGTCTCTACAAAGAGGCAGGAGGAACGGCAGACGAGGATAGAGAGAGTGACGGAGAGGATAGAGAGCGTCTGAGAGAGAGGATCCGCATGCGGGACAGAGGAAGAAAACAGCAGGCAGACGCTGGACAGCTTTTTTTTTGACTTGCACCACAACTGCTACAGCAGAGGAAATGCTTATATGAAGAGAAAAAGTAATTGTGCATAGTAAGCAGAAGCTGTCTTCGCTTGTATTGATAAAAGCAGGAATTGGTGAGTTGCTGCATCTTAGAGTGTCTCGTCATGGATGACTCTAGGGAACCTACTGAATAGATCTCAGCGCTGCATCATGGTTCAGCAAAGAACCCACAAATACTCGTCAGTCATGGACAGCAATTCAAGCAGAGAGGTGTTTGTGGGACTGGCGGCTGAGGACGATGCTGAGGTGTTTGGACATGTACCTTCTAACAAAGACCCCAACTGGTGCAAAACTCCAACTGGGCACATCAAAAGACCAATGAACGCTTTTATGGTCTGGTCTCAGATTGAAAGACGGAAGATCATGGAGCAATGGCCTGATATGCACAATGCTGAGATTTCAAAGCGCCTTGGGAAACGCTGGAAACTACTGCCTGACTATGAGAAGATACCCTTTATCAAAGAGGCCGAAAGACTGCGTCTAAAGCACATGGCTGACTATCCTGACTACAAGTACCGGCCCAGGAAGAAAAGCAAGGGCTCAACCCCTGTCAAACTTGGCGAGAAGTTGCCTATGAAATCCAGCAAGCCCCTTCCAGGAAGATCTTCCGGGCTCTCCTGCAAAGGGCTTAAGATCAAACCTGCTTCTTCAAAGCATAAAATGAACTTTAGTAGCAATAAATACAAGAGCTACAGTGAGAGCATGAGCGACGACGACACCATGGATGTAAACCTAGAAAGTCCAGTGACTCAGCAAGACGATCGCAACACGTCAAGTCACTTTGTCCTTCACCAGCAGGCTACTGTTCAATCTGAGGACCAGCAACCAATTCCTGAGCTCAGAGTGAAAGTACCCATCTCTCAAACCAGCAGCATCCAGAGTCTCTCCTCGGACAGCGAATGCCAGGCTTTCCCAGAGTCCACGACGAGCGAACCACGAGGGTCCACATCTGGAAGATCTTCCACTCCGACCTCGACCAGCTCCTCCTCTTTGGTGTCGTCAGCATGTTCGGATGAGGAACTGGACGAGGAACTCTTGCATATAATTTCCAACAGTATGCCTATGGACTGTTCCACTCTGGACAAGGACTTTGAAGCATTTAACGCCAACTCAGGATCTCATTTTGACTTCCCAGATTACTGCACTCCAGAGGTGAATGAAATGATTTCTGGAGACTTGCTCGTGCCCAGCATCTCAGACCTAGTGTTCACCTACTGAATTTGAGTCTTCGTAATGTGGTCAGGCCTGCATAGCTGCCAAGTTGAAAATATGTTGTCCATGTTGTACTTGGACAATTCCTTTTTTTCCATGTGTTTATTTTTCTCAATGAATTCCGTAAGTGCTATTGCTTTCCTTTCCAAGCATGTCACATCTTGTTGGTTTAgcgaacacacacacaggggTTTGCAGAGCTGTTCGTCAGAGAAGACATTTAGATTTTGTTTAACACTTCAGAAGCAGCAGGGTGTAATTCTTGGAGAAAATGTCTCTCACCAGCTGTTTTTAAACTCCAAGTATCTTAATGGGAAGCAAAgatcaaacaaaaatgacaattttgtcaTCGTTTATTCACCtgcatgactttctttcttcacGAAATGCTAACATTTGAAGAACGTGTCAGATGTTTTAGTCCAATTAATGGGCCAAAACTACACTGGACACTACCAACTTTCAATGTGTGAGCATTCCACAAAACCCTCATCTTTTATAGTCCACAGAAGGCCATGGGTGATGACAATTTCCGTTTTTCTGTGAACTAGCCCCATTATATGCAGCACTGTCATCTTCAAGACTGCTCATAACACAAACTCTTAAtctttattaaatcaaatataatttccTTCAAAGTTGTGCACATGTCGGCTGACAGTGTTGGTGCATTAATATCCTAAAACACTGAGGCAGAAAAGATGAGTGAAATCTTCCCACAGCACTTACAGTAAAGCATCAGTAACCTTGCAGAGGAAATCACTGCAGACACATAATTCATATCATATACTTTAATTAGGTAATAGCACTTTCATCACCTTGCCATTGCTGCAGACATTAAGACACATGTGTGATTTAAAGGCAGCTCTGCATCGGCCCAgggtgcaggtgtgtgtgtgtgtctgtgtgtgtcaatGTGTGCCTGAACTGTTTGGACAAAAGAGGGATAAGGTTAGGGTTTGGGCGGGGGGGTTGGTTCTTTCAGGGAACTGTGCATCTGTCCATGCAGGCAGCAGCTTTTATGCAGGGGTCGGGCTCTGCGCTTACCGAGCGTCTGCTGGGGTGGGGAGGTGTGTGAGGGGGGGGGGCTCCTGCACCGGTTCGCTGAAATGCATGTCATGTCTGCAGTCTGGCTGCAGCTGCCCCGATCAGGGCGAGAAATCTGTGTCTGCCAGCTGGCCCCCATTGACTCTCTCAGGGATCGTTTGTCTAGGTCCTAGTGCCTCCCGTAGGTAATTCATCTGTGAtgatctgtgtgcatgtgtgtgtgtgtgtgtgtgagagcgtcTCTTTCTCTCCCGGAGAAACCATCCAAAGCCAACTGAAGTGACTGAATGCCCTGATTTCTCAAAAAAGGAAGATCCGTCctctgttttctttttatttcaccCACATGCTCTTATTAATTTCAGTTCAGTTGGCGCCCGGGAGACCGGCATTATTTACCTCCCACCAACAGTTGTCAGAGAAGGGACAACAAACCCTGCAGTTCATATCTTACATAAACTGTTAATCCTCGTCGATTCGAGACGTCCTGTGAAGATGCGGCGGCATGCTGTGCAAAGTGAAGGAACACAAAAGGAAAGGGACACGCTGTGTGTTTGCTCTTGGTTTAACCTCACTGTTTGGACTGCATAATGACTACTTTTGTCACATTGACCACAGAGGCATACAACAGCCTGTGTTTCCTTATTGTAGGAAAGAGTTGACTAGACCAGTATTTTTTCTAACCCATGATAGTTTGCAAAAATCTTAGTTTTATCAAGTGGTTTTTAGAATGACAGAACTACACATGTACTTCAGGTATCTGTATTCCAGCCGAAAAGAGAAATGGCGTCAACCAAGAGGGCTGTCAGGAAAGATGGACGCCATTTGTGATATGAGGCCTTcattcataaaacacaaacatgagGATTTCTTTCAGCTTGTAAAAAAACATTGCCTCGACGTGTATGTATAGCACAGACAGATTTAGTGCTGTAAAACGGAAATGTTGGCATTTTAAATGCTCAAAATTGTAGAAACTGTAGAAATACCGCAAGTTATTGGAAACTGGCATTGTCTTTGTAATGCAAAAAGGTCATTTGTATTAtgaaaaaccaaaatcaagtttGCATGTGTCATGTGAATAGATACAACAAAAGGCTTGGGCCTTCAACAATCATCAGGGAAATTATTTCAGGAAAGCGACACGTTCACTATTTTGGAAGATTCAGCGCTACTGAAATTGTGAGATGGCTCGTCATACCTGAAGCTCACAAACAGGAACCAGTCTTTGCATTAAGACGTTTGTAAATCAAATCTGTCTCTGTACACTCTTGAATTGTATCAGGTCACACACTGAACCAATACAGTACCAAACACCAGCAGTCAATCTAACGGACTCAGGACTAAAAACATCAGCCCACTGTGGATCTGCTTTGATTCAGCCATTACTAAAATGCACTCTGTTTGGCCATTGTATGTCATTGTAGATGATCTGCAAAAGAACTGTATGTAGCATCAAAGGTCAATTTGCAAAGTTGtacctttttaaatattaaatattttaaaaacgtcA

Function

symbol description
sox12 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).

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 ENSDARG00000025847

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00007898 True 3955 mRNA 0.44 2 24187610 24191928

Neighbor

gene id symbol gene type direction distance location
XLOC_004133 trib3 coding downstream 124414 24058530 ~ 24063196 (-)
XLOC_004132 chia.3 coding downstream 170797 24013769 ~ 24016813 (-)
XLOC_004131 CR354444.1 coding downstream 286249 23900000 ~ 23901361 (-)
XLOC_004129 pik3c2b coding downstream 490393 23593837 ~ 23697217 (-)
XLOC_004130 LO016980.1 coding downstream 532132 23655350 ~ 23655478 (-)
XLOC_004135 si:ch211-15p9.2 coding upstream 153769 24345697 ~ 24347644 (-)
XLOC_004136 dvl1b coding upstream 168816 24360744 ~ 24428319 (-)
XLOC_004137 mxra8a coding upstream 237995 24429923 ~ 24458786 (-)
XLOC_004138 plekhg5a coding upstream 272428 24464356 ~ 24538860 (-)
XLOC_004139 olfml3b coding upstream 479748 24671676 ~ 24681292 (-)
XLOC_004063 CR854846.1 misc downstream 8059932 16127382 ~ 16127678 (-)
XLOC_004019 CR450764.8 misc downstream 11495919 12691395 ~ 12691691 (-)
XLOC_004015 CR450764.4 misc downstream 11565843 12621518 ~ 12621767 (-)
XLOC_004013 CABZ01022569.1 misc downstream 11596314 12590999 ~ 12591296 (-)
XLOC_004008 BX000700.19 misc downstream 11674348 12512966 ~ 12513262 (-)
XLOC_004125 BX571675.2 non-coding downstream 878292 23305755 ~ 23309318 (-)
XLOC_004123 CR555297.1 non-coding downstream 1028303 23159189 ~ 23159307 (-)
XLOC_004117 NA non-coding downstream 2093213 22089435 ~ 22094397 (-)
XLOC_004140 NA non-coding upstream 517856 24709784 ~ 24714293 (-)
XLOC_004141 CR628365.1 non-coding upstream 627337 24819265 ~ 24820001 (-)
XLOC_004142 CR628365.2 non-coding upstream 775843 24967771 ~ 24967887 (-)
XLOC_004144 dre-mir-499 non-coding upstream 1013225 25205153 ~ 25205243 (-)
XLOC_004147 NA non-coding upstream 1176184 25368112 ~ 25408896 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000306_02311430_02312497 SOX12 coding CI01000306 null 2310592 ~ 2312664 (-)
rainbow trout (Oncorhynchus mykiss) G636013 sox12 non-coding NC_048571.1 CM023225.2 65586672 ~ 65592248 (+)