XLOC_008926 (shox2)


Basic Information

Item Value
gene id XLOC_008926
gene name shox2
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007126.7
NCBI id CM002899.2
chromosome length 48040578
location 2182103 ~ 2188422 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00017636
GCGCGCGGATCAAGGGGCAGACGCTTCGCTAAGTATAAATAGTGTGACTTCAATAGTGAATCGGCAGCAAGTCTGTATACACTCTCCGCAACAAGAGGAATTGTCAAAGATCTCATCATCACACCATCATCTCGCATTTAGGccgatagaaagagagagagcgcgcgCGCTGTTCCCGTTCTTATGGTAGTCTGCTAAGGATCTAAAAGGAAGATTGTgtggggcttttttttttcttcttcttcgttCTTCTTGGGTGCAGTGATGGAAGAACTTACAGCGTTTGTCTCTAAATCTTTTGATCAGAAAGTGAAGGAGAAGAAGGAAGTGATCACGTACCGGGAGGTGTTGGAAACCGGTTCGGTGAGGAACCGGGAGAGTCTGTCGGCGGATCCAAACCGCGAGGAAATCAGCAGCATCACGCGGAGCGGAGTGCGCTCATCGCCGGTCAGGGAAGCGGACATGCTCGCGTCAGAGAGAAGCAGAGACTCGAGCAGTCCTAAACTTACAGACGGTAATACAGATATGAAGGAACGCAAAGAGGATTGTAAGCCGCTGGAGGATGAGACACAGACTAAAATCAAGCAGAGAAGGAGTCGGACTAACTTTACCCTTGAGCAGCTCAATGAGCTGGAGAGACTGTTCGATGAAACGCACTATCCGGACGCCTTCATGAGAGAGGAGCTGAGCCAGAGACTCGGGCTGTCGGAGGCCAGGGTGCAGGTTTGGTTTCAGAACCGAAGGGCTAAATGCAGAAAGCAGGAAAATCAGTTGCATAAAGGGGTTCTCATCGGAGCGGCGAGCCAGTTTGAAGCATGTCGCGTGGCTCCATATGTCAACGTGGGAGCTCTGCGCATGCCCTTTCAGCAGGATAGTCATTGCAACGTGCCGCCCTTCTCCTTTCAGGTGCAGGCGCAGCTGCAGCTGGACAGCGCCGTGGCTCACGCGCATCATCACCTGCACTCGCACCTGGCTGCGCATGCGCCGTACATGATGTTTCCCGCGCCGCCGTTCGGGTTGCCCCTGGCGACGCTCGCAGCGGAATCCGCGTCGGCGGCGTCGGTGGTGGCGGCAGCCGCCGCCGCGAAAACCACCAACAAAAACTCCAGCATCGCGGATCTGAGACTGAAGGCGAAAAAGCACGCCGCGGCTCTGGGACTGTGACGTCACATTGCATTGAACGACGGCATATCGACGTTAACCACAGACAATAAACGCAAATTTTCGTATGAAGGACACGCAAGAAGGAGAGGCTATTTATAAAGACAAACTGTGAAATGGAGAAACATTTCGTGGATCTTCACAAGGATGGAAACAACTGCAAGATGCAGAACTATACGAGAAAATAAAGCTGAACTTAAAGcgaacagaactttttttttgtgcagaACACGAGAGGTTTGAATCCGAAAATAATGATATAAAGCAGCTGGGACAGTTGTGTGACAACGCGGACATTTCTGCTTTAACACGTTATtagtaattaatgaaaataaagaggCTGGCCTCGTTTATTTGAAACAAAGTTTCTTTGTGGATATTTGTGAAATATTACAGAAATACCTTTTGTTGCCAAATCATGAAAACTCCAGTGTTAAAAACCCCCCATTTCCGTCCTCACGGATGACACACACTTTACATGCTCTCTGGTTtatgaaactaaataaatgagCATTAAATGAAA
>TCONS_00017637
TGTTCTGGAACTCTAATCCCTGGATAGATTAAACCACTGGAGAAAGACGATATATTATGACACTATTTCAGACGCAGGACGTCTAGATTTGGATTCTTCCCGtttgtttaacattttaactaATCTTTTTTCCTTCGTGGTTAATTTGGCGCATTTTGCGTCAATTTTCAGCGCGTtacaaagataaataataattaaaatctgCGGTTGAGCTTTATGAATATTTTAGAGGTCCCCAGGGATACATGGTTTTACTGAGATTGTTGTCATTTTGGGGGGATTTTACACGTGCCCTCAccgacagctgtcaatcaatgtCTTCTGCTTTCAGGTTTGGTTTCAGAACCGAAGGGCTAAATGCAGAAAGCAGGAAAATCAGTTGCATAAAGGGGTTCTCATCGGAGCGGCGAGCCAGTTTGAAGCATGTCGCGTGGCTCCATATGTCAACGTGGGAGCTCTGCGCATGCCCTTTCAGCAGGCAATCATTGCAACGTGCCGCCCTTCTCCTTTCAGGTGCAGGCGCAGCTGCAGCTGGACAGCGCCGTGGCTCACGCGCATCATCACCTGCACTCGCACCTGGCTGCGCATGCGCCGTACATGATGTTTCCCGCGCCGCCGTTCGGGTTGCCCCTGGCGACGCTCGCAGCGGAATCCGCGTCGGCGGCGTCGGTGGTGGCGGCAGCCGCCGCCGCGAAAACCACCAACAAAAACTCCAGCATCGCGGATCTGAGACTGAAGGCGAAAAAGCACGCCGCGGCTCTGGGACTGTGACGTCACATTGCATTGAACGACGGCATATCGACGTTAACCACAGACAATAAACGCAAATTTTCGTATGAAGGACACGCAAGAAG
>TCONS_00017638
ACAAGAGGAATTGTCAAAGATCTCATCATCACACCATCATCTCGCATTTAGGccgatagaaagagagagagcgcgcgCGCTGTTCCCGTTCTTATGGTAGTCTGCTAAGGATCTAAAAGGAAGATTAAAGTGAAGGAGAAGAAGGAAGTGATCACGTACCGGGAGGTGTTGGAAACCGGTTCGGTGAGGAACCGGGAGAGTCTGTCGGCGGATCCAAACCGCGAGGAAATCAGCAGCATCACGCGGAGCGGAGTGCGCTCATCGCCGGTCAGGGAAGCGGACATGCTCGCGTCAGAGAGAAGCAGAGACTCGAGCAGTCCTAAACTTACAGACGGTAATACAGATATGAAGGAACGCAAAGAGGATTGTAAGCCGCTGGAGGATGAGACACAGACTAAAATCAAGCAGAGAAGGAGTCGGACTAACTTTACCCTTGAGCAGCTCAATGAGCTGGAGAGACTGTTCGATGAAACGCACTATCCGGACGCCTTCATGAGAGAGGAGCTGAGCCAGAGACTCGGGCTGTCGGAGGCCAGGGTGCAGGTTTGGTTTCAGAACCGAAGGGCTAAATGCAGAAAGCAGGAAAATCAGTTGCATAAAGGGGTTCTCATCGGAGCGGCGAGCCAGTTTGAAGCATGTCGCGTGGCTCCATATGTCAACGTGGGAGCTCTGCGCATGCCCTTTCAGCAGGCAAGTGCAGGCGCAGCTGCAGCTGGACAGCGCCGTGGCTCACGCGCATCATCACCTGCACTCGCACCTGGCTGCGCATGCGCCGTACATGATGTTTCCCGCGCCGCCGTTCGGGTTGCCCCTGGCGACGCTCGCAGCGGAATCCGCGTCGGCGGCGTCGGTGGTGGCGGCAGCCGCCGCCGCGAAAACCACCA

Function

symbol description
shox2 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and sequence-specific double-stranded DNA binding activity. Acts upstream of or within heart development and regulation of heart contraction. Predicted to be active in nucleus. Is expressed in apical ectodermal ridge pectoral fin bud; heart; nervous system; and pectoral fin. Human ortholog(s) of this gene implicated in lung cancer. Orthologous to human SHOX2 (short stature homeobox 2).

GO:

id name namespace
GO:0007507 heart development biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0007275 multicellular organism development biological_process
GO:0008016 regulation of heart contraction biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003677 DNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-040426-1457 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and sequence-specific double-stranded DNA binding activity. Acts upstream of or within heart development and regulation of heart contraction. Predicted to be active in nucleus. Is expressed in apical ectodermal ridge pectoral fin bud; heart; nervous system; and pectoral fin. Human ortholog(s) of this gene implicated in lung cancer. Orthologous to human SHOX2 (short stature homeobox 2).

Ensembl:

ensembl_id ENSDARG00000075713

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00017636 False 1684 mRNA 0.49 5 2182103 2188422
TCONS_00017637 False 854 mRNA 0.51 3 2182540 2184638
TCONS_00017638 True 884 mRNA 0.56 6 2182691 2188332

Neighbor

gene id symbol gene type direction distance location
XLOC_008925 taar12m coding downstream 129844 2051128 ~ 2052259 (-)
XLOC_008924 dock10 coding downstream 171177 1897375 ~ 2010926 (-)
XLOC_008923 porb coding downstream 296856 1847135 ~ 1885247 (-)
XLOC_008922 taf15 coding downstream 338055 1825172 ~ 1844048 (-)
XLOC_008921 mmp28 coding downstream 359555 1778773 ~ 1822548 (-)
XLOC_008927 AL954387.2 coding upstream 77547 2265969 ~ 2266083 (-)
XLOC_008928 NA coding upstream 135244 2323666 ~ 2328284 (-)
XLOC_008929 neu4 coding upstream 301782 2490204 ~ 2497568 (-)
XLOC_008930 srprb coding upstream 322339 2510761 ~ 2519640 (-)
XLOC_008931 dnajc30b coding upstream 401527 2589949 ~ 2596125 (-)
XLOC_008910 LO017713.1 non-coding downstream 860197 1321790 ~ 1321906 (-)
XLOC_008908 NA non-coding downstream 1039034 1140445 ~ 1143069 (-)
XLOC_008903 NA non-coding downstream 1173744 1007600 ~ 1008359 (-)
XLOC_008902 NA non-coding downstream 1188516 986144 ~ 993587 (-)
XLOC_008899 NA non-coding downstream 1281224 899089 ~ 900879 (-)
XLOC_008932 NA non-coding upstream 410382 2598804 ~ 2611170 (-)
XLOC_008933 NA non-coding upstream 429857 2618279 ~ 2625928 (-)
XLOC_008940 CABZ01086049.1 non-coding upstream 547961 2736383 ~ 2736498 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000091_00958756_00963695 SHOX2 coding CI01000091 null 958641 ~ 964043 (+)