XLOC_021865 (hoxc5a)


Basic Information

Item Value
gene id XLOC_021865
gene name hoxc5a
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007134.7
NCBI id CM002907.2
chromosome length 46223584
location 36118738 ~ 36120511 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00043337
ATGAGCTCATACGTTGGGAAGTCTTTTTCTAAGCAGACGCAAGACGCCTCCTCTTGTAGAATGCACACTTTTGACAACTATGGAGCTCACAGTGAGTTCCACGAGTCCAATTACGCGTACGAAGGGCTTGATCTCGGCGGATCCTTCAGTTCTCAAATCCCCACCAACTCTTTGAGGCGGGAGGCGATAAACACAACCGACCGTGCAAGGAGCAGTGCAGCAGTTCAGCGAACACAGTCTTGTTCAGCTCTGGGCTCTCGTAGCTTTGTAAGCACTCACGGGTACAACCCCCTCAGTCACGGACTGTTGAGCCAAAAAGCCGAGGGGAATATGGAAGTTATGGAGAAGCCCAGCGGCAAGAGCCGCACAGACGATATCAAAATGGAGACTACTTCAGCGATAAAGCAACAAACTAATTCGACTCAGCGTCAGAACCAGTCGCAGCCGCAGATATATCCGTGGATGACAAAGCTACACATGAGCCACGAATCTGACGGTAAAAGGTCACGAACCAGTTACACCCGGTACCAGACTCTGGAGTTGGAGAAAGAGTTCCATTTCAACCGATACCTCACACGTCGCAGACGTATTGAGATTGCCAATAACCTCTGCTTGAACGAGCGCCAAATTAAAATATGGTTCCAGAACCGTCGCATGAAGTGGAAGAAGGACTCAAAGTTGAAAGTAAAAGGAGGACTATAAATAATGTGTTGCACGACTTCAATTACAACAGCCTGAAAATAAAGGCAATGTTAACCCTTGAACTAAAACAACGAATGATTTAAAATTGATTTTGTTATTAACAACTGTTGATGTCTATCATTTGTTTACAATATTATGTTGTTATGTGAATATGTtgatattttcaatatttattgaTAGTGCTCTGTCCCCAGTACGGCAGATGCTAATTTGAATAATGTATGAGCTTAAACATTGATTATGCTTTACTAAAC

Function

symbol description
hoxc5a Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in anterior/posterior pattern specification and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be active in nucleus. Orthologous to human HOXC5 (homeobox C5).

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0007275 multicellular organism development biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity 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-980526-533 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in anterior/posterior pattern specification and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be active in nucleus. Orthologous to human HOXC5 (homeobox C5).

Ensembl:

ensembl_id ENSDARG00000070340

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00043337 True 956 mRNA 0.44 2 36118738 36120511

Neighbor

gene id symbol gene type direction distance location
XLOC_021864 hoxc6a coding upstream 1831 36115541 ~ 36116907 (+)
XLOC_021863 hoxc8a coding upstream 15103 36101185 ~ 36103635 (+)
XLOC_021862 hoxc9a coding upstream 21250 36095260 ~ 36097488 (+)
XLOC_021861 mir196a-1 coding upstream 30542 36088091 ~ 36088196 (+)
XLOC_021856 hoxc10a coding upstream 31843 35969228 ~ 36086895 (+)
XLOC_021866 dre-mir-10b-2 coding downstream 9490 36130001 ~ 36130092 (+)
XLOC_021867 hoxc4a coding downstream 10372 36130883 ~ 36132563 (+)
XLOC_021868 BX005254.2 coding downstream 29919 36150430 ~ 36154411 (+)
XLOC_021869 hoxc1a coding downstream 57593 36178104 ~ 36190988 (+)
XLOC_021870 hnrnpa1b coding downstream 186028 36306539 ~ 36310418 (+)
XLOC_021854 BX465853.1 non-coding upstream 320459 35790808 ~ 35798279 (+)
XLOC_021852 NA non-coding upstream 388676 35729255 ~ 35730062 (+)
XLOC_021851 NA non-coding upstream 391216 35723438 ~ 35727522 (+)
XLOC_021848 NA non-coding upstream 416017 35694272 ~ 35702721 (+)
XLOC_021871 NA non-coding downstream 196838 36317349 ~ 36317913 (+)
XLOC_021872 NA non-coding downstream 198667 36319178 ~ 36319588 (+)
XLOC_021874 NA non-coding downstream 244394 36364905 ~ 36365917 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000001_02286306_02287855 HOXC5A coding CI01000001 null 2286263 ~ 2288002 (-)