XLOC_037292 (shox)


Basic Information

Item Value
gene id XLOC_037292
gene name shox
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007120.7
NCBI id CM002893.2
chromosome length 56459846
location 34641237 ~ 34647695 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00073389
AACAGCAGGAGTGATCTAAACCCTTCTCCACGCAAACATTTCGCCGAATCCACAGTTGAGCAGATAAAAGATTCGCGTTAGATTCATTTTTAAAGTGGATTTCTGTAATCAGCCATGGAAGAACTCACGGCGTTCGTGTCGAAATCCTTCGATCAGAAAACCAAGGAGAGCAGCAAAGAGAGCATCACGTACAGGGAAGTTTTGGAGAGTGGTTTAGCCCGAGCCAGAGAGCTGGGAAACTCGGAGACCAACCTTCAGGAGATTACTGAAACAAACAACAACCATTGTCCGGTACATCTTTACAAGGAGCACGTAGAGCTGGAAAAGGAGAAATTAAAGGAGTTTAGCGTGACAAGGGCTTCTGACGGAATTTATGACTGCAAAGACAAGAAGGAGGATGTGAAATCAGAGGACGAGGACGCACAGAGTAAACTGAAGCAGAGACGGAGCAGGACAAATTTTACCTTAGAGCAGCTGAATGAACTGGAGCGCTTGTTTGATGAGACGCATTACCCAGACGCCTTCATGCGGGAGGAGTTGAGTCAGAGACTGGGGCTGTCTGAGGCCCGCGTGCAGGTATGGTTTCAAAACAGAAGAGCGAAATGCCGGAAACAGGAAAATCAAATGCACAAAGGCGTTATTCTGGGCACCGCGAGCCACCTGGACGCGTGCAGGGTCGCTCCTTACGTGAATATGGGCGCACTCAGAATGCCATTTCAACAGGTTCAGGCTCAGTTGCAGTTGGAGGGGGTCGGAACACACTCCCATCCTCACCTGCACCCACACCTCGCAGCCCACGCTCCATATCTGATGTTCCCTCCTCCGCCCTTTGGATTACCGATCGCGTCGCTGGCAGACTCGGCCTCTGCAGCGGCCGCCGTGGTTGCTGCTGCCAAGAGCAATAGCAAGAACTCCAGCATCGCTGACCTGCGACTCAAGGCAAGAAAACACGCCGAGGCGCTGGGACTCTGACCCCCATGGGCTTCTCTGCTGCTCTGAACTGATAATTGCTTCTAACACAAGACTAAGCCTGTGAAAAGGCCGTGACACTCacagttaaaacaaaacaaaa

Function

symbol description
shox 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 bone mineralization; cell population proliferation; and pectoral fin development. Predicted to be active in nucleus. Is expressed in several structures, including digestive system; nervous system; pericardial region; pharyngeal arch; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in Leri-Weill dyschondrosteosis and SHOX-related short stature. Orthologous to human SHOX (short stature homeobox).

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0001503 ossification biological_process
GO:0007275 multicellular organism development biological_process
GO:0008283 cell population proliferation biological_process
GO:0030282 bone mineralization biological_process
GO:0033339 pectoral fin development biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003677 DNA binding molecular_function

KEGG:

id description
ko03000 Transcription factors

ZFIN:

id description
ZDB-GENE-051030-21 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 bone mineralization; cell population proliferation; and pectoral fin development. Predicted to be active in nucleus. Is expressed in several structures, including digestive system; nervous system; pericardial region; pharyngeal arch; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in Leri-Weill dyschondrosteosis and SHOX-related short stature. Orthologous to human SHOX (short stature homeobox).

Ensembl:

ensembl_id ENSDARG00000025891

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00073389 True 1072 mRNA 0.51 5 34641237 34647695

Neighbor

gene id symbol gene type direction distance location
XLOC_037291 si:ch211-269e2.1 coding upstream 158539 34433053 ~ 34482698 (+)
XLOC_037290 med14 coding upstream 211662 34397516 ~ 34429575 (+)
XLOC_037289 NA coding upstream 250084 34390451 ~ 34391153 (+)
XLOC_037288 lamp1b coding upstream 251362 34380299 ~ 34389875 (+)
XLOC_037286 pou2f1b coding upstream 262563 34319333 ~ 34378674 (+)
XLOC_037293 BX601644.1 coding downstream 143055 34790750 ~ 34790887 (+)
XLOC_037294 BX601644.6 coding downstream 175154 34822849 ~ 34828098 (+)
XLOC_037295 tfdp1a coding downstream 303247 34950942 ~ 34968429 (+)
XLOC_037296 CR936415.1 coding downstream 321755 34969450 ~ 34969567 (+)
XLOC_037297 NA coding downstream 323148 34970843 ~ 34973324 (+)
XLOC_037287 NA non-coding upstream 262905 34370860 ~ 34378332 (+)
XLOC_037285 NA non-coding upstream 345113 34286754 ~ 34296124 (+)
XLOC_037279 NA non-coding upstream 632671 33997142 ~ 34008566 (+)
XLOC_037276 NA non-coding upstream 877060 33726683 ~ 33764177 (+)
XLOC_037301 NA non-coding downstream 512949 35160644 ~ 35167934 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000009_03466999_03473248 SHOX, MOG-12 coding CI01000009 null 3466853 ~ 3473414 (+)
bowfin (Amia calva) AMCG00014689 shox,LOC102229599 coding CM030128.1 CM030128.1 27179103 ~ 27189518 (-)