hoxd3a (hoxd3)


Basic Information

Item Value
gene id hoxd3a
gene name hoxd3
gene type coding
species eurasian perch (Perca fluviatilis)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_053123.1
NCBI id CM020920.1
chromosome length 39440604
location 17901079 ~ 17909596 (+)
genome version GENO_Pfluv_1.0_2020_eurasian_perch_Genome

Sequence

>XM_039818002.1
GCAGCCTACTACAACGTACAGTGTGTAGCCACACTGACCTACATGTCTGAACAGCAATAAATGGGAGCCAAAGGCAGTGCCATTTTCAATGACACTGCACCCAGTGCAGGAATACACCGTCGTTGCTCTCCATCCGGCCATATTTGATTTCCAGCTGTTTTTCGCCGAAGCCTCTCCGAGCCAGACAACCCCCCTAAGATATATTAAAGTGCGCTGTCTGCATTCAGAGATATAATCCAGAGACTATACCACTCCGCTCTCTATTCTCGACCACGTGATTGTCTAAATAATTAATGCAGCACGTCCCCCTAGAAACACGGCGTCGTCATTAATCGCAAGAACTCTATCAGACTTGAAAACTGAAGAGATCCCCCAAGAAAATAATATCCGATAGCCGGCGCAACCGTAGCCCCGCACTTTAGCAACACATCCGAACCGATGGATGCTTGGGTCGAGGTGGGAGCAGTGATGAATGCGTGagggatataaaagagatttgcGCAGATTTCGGTCACAGACTGGAGCAACGGTGGGAAACACCAATCACGTGAATAAACAACACCCATGCCATTGGATCGAGTTGTTTTGTCTTATTGGCTTTGAATCCACAAAATGCAGAAAGCAACATATTACGATAACTCTGGACTTTTTGGAGGGTACACCTTCCCCAAACCAGACTCGTACAACTACGGCACCGCTCATCAGTCCTACCCTGCTTCTAACATTGAGAATGACTACCAGGGCTCAGTGTGTCCCATCCAGACCTCTGCTGTCCGGCCACCAACCCTCAAAGACAGTGACCTGAACGGAGACTGCATGCGGCAAAGCAGCAGTcaaagcaacagcagcagccaaGCAACGAGTATTGTGGAGCAGCAGGCAGCACCTCCACTGTCCGCATCCTCTCCCAGCTCCAACAGCTCTGCGCCCCAGAAGAAGAAATCCCCATCCAGCAGCGCTTCCAGTACTGCCACACCAACTCTCACAAAGCAGATATTCCCCTGGATGAAGGAGACCCGGCAGAACTCAAAGCAGAAGAGCAACAACTGCACCAGTGCAGGTAGAGACCATGATGGTGGCGAGGTGAGTGATGAGAAGAGCCCACCGGGACCAGCGTCCAAACGGGTCAGAACTGCTTATACCAGCGCACAACTTGTGGAGCTGGAGAAGGAGTTTCACTTTAACCGCTATCTCTGTCGCCCTCGGAGAGTGGAGATGGCAAATCTGTTGAATCTCACCGAGCGTCAAATAAAGATCTGGTTTCAAAACAGGAGGATGAAATACAAAAAGGACCAGAAGTCTAAAGGGCTCGCGCACTCTCCCCTGGGACACTCCCCGGATAGAAGCCCGCCGCTGAGTGGCCCAAATCACATTGGATACTCTGGCCAGCTCCAAAACGTGAACAGCCTCAGCTATGACGCCCCCTCGCCCCCGTCTTTCGCCAAACCCCAGCCAAACATGTACGGTTTGGCCGCGTACACGGCACCCTTGGGTGGCTGCATCCCACAACAGAAGAGGTACCCGGGCTCTGAGTACGAGCACCACGGCATGCAGAGCACCGGCAGCTTTGCCAACGACAATTTGCAAGGCAGCCCCGTTTATGTGGGTGGGAATTTTGTTGATTCCATGCCAGCCTCGGGCCCCATGTTCAACCTCGGCCATCTTCCCCACCCCTCATCCACCAGTGTGGACTACAGCTGTGCCGCTCAGATCCCAGGAAACCACCATCATGGACCCTGTGATCCCCATCCCACATACACAGATCTCACCTCTCACCAAGCGTCTCAGGGAAGGATTCAGGAAGCGCCTAAACTCACGCATTTGTAATAtgtggtttctgtgtgtgcgtgtgcgtgcgtgtgtgtatgtgtgccaaAATTATGTTGCGCTCTTTTTATTACCTCACTAGTCTAATAACTACACTCCAAGCGAGTCGTGTGTATTATTACAGTATTATTGATATTACTATTAATGCTATTGTGTAATTATTTTCTAAATAATGCAGCTTTGTCCATTTCTCTTGAATATTTGGAGATGCGCAGCCAGTTgttcctctttttgttttttctcaagTGCAATGCGCAATTTTTGACTGAATATTTCATGCCGTTACTTGAAGGTAAGTCTTGTAGATCACGAGTAGAAGCTCTTTAGAGAGAAGGACTATTAGGGACATTTTCGTCTGTTTTGTAGGATCTCATTCTCCTCACGGGcatcctatttatttattttgtattattttgcttaatctttcgtactagcatatagcctatttattatttaagtaaTTTGTATTGCACCTTATTTATCGTTTATATGCGAGTATTTCTAAATGTGGAGTTTTTTGTAAGATTGGACAGATCAGTGCACTTGGAAGTGTTGGCAAAACAGGGTTTGAAAAATGCGATGACTCGCAGTGTATTGTTAAAAAAGAGcatttttaattgtaaatctGGGATAAATGGGGCATTTGATAGTGTATAAACACCACTATATGTCCATGATTAATCTTGTCTCAAACCTAAAGCAAAACGTAGACTATCGAAGTATGAAATATTATACACCAGCATGTCATTTCGTGTAGTCCAttactattttttatttgtcttccATTGTTATTCATTTAGTTGGATATCCATAAATTTATGAAACCTTAATGATATTGAAATGTtatattttattgtgtttaacattttgtaaataaagtgctcaaacttg
>XM_039818003.1
GCAGCCTACTACAACGTACAGTGTGTAGCCACACTGACCTACATGTCTGAACAGCAATAAATGGGAGCCAAAGGCAGTGCCATTTTCAATGACACTGCACCCAGTGCAGGAATACACCGTCGTTGCTCTCCATCCGGCCATATTTGATTTCCAGCTGTTTTTCGCCGAAGCCTCTCCGAGCCAGACAACCCCCCTAAGATATATTAAAGTGCGCTGTCTGCATTCAGAGATATAATCCAGAGACTATACCACTCCGCTCTCTATTCTCGACCACGTGATTGTCTAAATAATTAATGCAGCACGTCCCCCTAGAAACACGGCGTCGTCATTAATCGCAAGAACTCTATCAGACTTGAAAACTGAAGAGATCCCCCAAGAAAATAATATCCGATAGCCGGCGCAACCGTAGCCCCGCACTTTAGCAACACATCCGAACCGATGGATGCTTGGGTCGAGGTGGGAGCAGTGATGAATGCGTGagggatataaaagagatttgcGCAGATTTCGGTCACAGACTGGAGCAACGGTGGGAAACACCAATCACGTGAATAAACAACACCCATGCCATTGGATCGAGTTGTTTTGTCTTATTGGCTTTGAATCCACAAAATGCAGAAAGCAACATATTACGATAACTCTGGACTTTTTGGAGGGTACACCTTCCCCAAACCAGACTCGTACAACTACGGCACCGCTCATCAGTCCTACCCTGCTTCTAACATTGAGAATGACTACCAGGGCTCAGTGTGTCCCATCCAGACCTCTGCTGTCCGGCCACCAACCCTCAAAGACAGTGACCTGAACGGAGACTGCATGCGGCAAAGCAGCAGTcaaagcaacagcagcagccaaGCAACGAGTATTGTGGAGCAGCAGGCAGCACCTCCACTGTCCGCATCCTCTCCCAGCTCCAACAGCTCTGCGCCCCAGAAGAAGAAATCCCCATCCAGCAGCGCTTCCAGTACTGCCACACCAACTCTCACAAAGCAGATATTCCCCTGGATGAAGGAGACCCGGCAGAACTCAAAGCAGAAGAGCAACAACTGCACCAGTGCAGGTGGCGAGGTGAGTGATGAGAAGAGCCCACCGGGACCAGCGTCCAAACGGGTCAGAACTGCTTATACCAGCGCACAACTTGTGGAGCTGGAGAAGGAGTTTCACTTTAACCGCTATCTCTGTCGCCCTCGGAGAGTGGAGATGGCAAATCTGTTGAATCTCACCGAGCGTCAAATAAAGATCTGGTTTCAAAACAGGAGGATGAAATACAAAAAGGACCAGAAGTCTAAAGGGCTCGCGCACTCTCCCCTGGGACACTCCCCGGATAGAAGCCCGCCGCTGAGTGGCCCAAATCACATTGGATACTCTGGCCAGCTCCAAAACGTGAACAGCCTCAGCTATGACGCCCCCTCGCCCCCGTCTTTCGCCAAACCCCAGCCAAACATGTACGGTTTGGCCGCGTACACGGCACCCTTGGGTGGCTGCATCCCACAACAGAAGAGGTACCCGGGCTCTGAGTACGAGCACCACGGCATGCAGAGCACCGGCAGCTTTGCCAACGACAATTTGCAAGGCAGCCCCGTTTATGTGGGTGGGAATTTTGTTGATTCCATGCCAGCCTCGGGCCCCATGTTCAACCTCGGCCATCTTCCCCACCCCTCATCCACCAGTGTGGACTACAGCTGTGCCGCTCAGATCCCAGGAAACCACCATCATGGACCCTGTGATCCCCATCCCACATACACAGATCTCACCTCTCACCAAGCGTCTCAGGGAAGGATTCAGGAAGCGCCTAAACTCACGCATTTGTAATAtgtggtttctgtgtgtgcgtgtgcgtgcgtgtgtgtatgtgtgccaaAATTATGTTGCGCTCTTTTTATTACCTCACTAGTCTAATAACTACACTCCAAGCGAGTCGTGTGTATTATTACAGTATTATTGATATTACTATTAATGCTATTGTGTAATTATTTTCTAAATAATGCAGCTTTGTCCATTTCTCTTGAATATTTGGAGATGCGCAGCCAGTTgttcctctttttgttttttctcaagTGCAATGCGCAATTTTTGACTGAATATTTCATGCCGTTACTTGAAGGTAAGTCTTGTAGATCACGAGTAGAAGCTCTTTAGAGAGAAGGACTATTAGGGACATTTTCGTCTGTTTTGTAGGATCTCATTCTCCTCACGGGcatcctatttatttattttgtattattttgcttaatctttcgtactagcatatagcctatttattatttaagtaaTTTGTATTGCACCTTATTTATCGTTTATATGCGAGTATTTCTAAATGTGGAGTTTTTTGTAAGATTGGACAGATCAGTGCACTTGGAAGTGTTGGCAAAACAGGGTTTGAAAAATGCGATGACTCGCAGTGTATTGTTAAAAAAGAGcatttttaattgtaaatctGGGATAAATGGGGCATTTGATAGTGTATAAACACCACTATATGTCCATGATTAATCTTGTCTCAAACCTAAAGCAAAACGTAGACTATCGAAGTATGAAATATTATACACCAGCATGTCATTTCGTGTAGTCCAttactattttttatttgtcttccATTGTTATTCATTTAGTTGGATATCCATAAATTTATGAAACCTTAATGATATTGAAATGTtatattttattgtgtttaacattttgtaaataaagtgctcaaacttg

Function

symbol description
hoxd3 Enables DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Involved in several processes, including Notch signaling pathway; cell-matrix adhesion; and positive regulation of macromolecule metabolic process. Located in aggresome and nuclear body.

NR:

description
homeobox protein Hox-D3a-like

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0007275 multicellular organism development biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function

KEGG:

id description
K09303 HOX_3; homeobox protein HoxA/B/D3

RNA

RNA id representative length rna type GC content exon number start site end site
XM_039818002.1 True 2718 mRNA 0.46 4 17901079 17909596
XM_039818003.1 False 2703 mRNA 0.46 4 17901079 17909596

Neighbor

gene id symbol gene type direction distance location
hoxd4a hoxd4 coding upstream 1381 17896012 ~ 17899698 (+)
hoxd9a hoxd9,LOC100697606,LOC102311238,LOC101477388,LOC102193136,LOC102792463 coding upstream 16463 17882466 ~ 17884616 (+)
hoxd11a hoxd11 coding upstream 22926 17873682 ~ 17878153 (+)
hoxd12a hoxd12 coding upstream 30920 17867862 ~ 17870159 (+)
scrn3 scrn3,LOC102796247 coding upstream 252827 17643338 ~ 17648252 (+)
agps agps,LOC102790648 coding downstream 121229 18030825 ~ 18061294 (+)
osbpl6 osbpl6 coding downstream 208928 18118524 ~ 18153899 (+)
gpr1 gpr1 coding downstream 302356 18211952 ~ 18213811 (+)
LOC120569837 ndufs1 coding downstream 305375 18214971 ~ 18223611 (+)
LOC120569834 ino80d coding downstream 314652 18224248 ~ 18233735 (+)
G124841 hoxd12,hoxd10,LOC108239741,LOC107579206 non-coding upstream 19574 17860753 ~ 17881505 (+)
G124834 NA non-coding upstream 64853 17834219 ~ 17836226 (+)
G124819 NA non-coding upstream 164093 17736110 ~ 17736986 (+)
G124816 atp5g3,LOC102234286 non-coding upstream 167828 17730056 ~ 17733251 (+)
G124804 NA non-coding upstream 213265 17687571 ~ 17687814 (+)
G124895 NA non-coding downstream 179629 18089225 ~ 18089543 (+)
G124901 NA non-coding downstream 219655 18129251 ~ 18182236 (+)
G124914 adam23 non-coding downstream 277822 18187418 ~ 18188518 (+)
G124915 NA non-coding downstream 279244 18188840 ~ 18189132 (+)
G124924 NA non-coding downstream 324446 18234042 ~ 18297620 (+)
hoxd10a hoxd10,LOC102792757 other upstream 19751 17860160 ~ 17881328 (+)
myo3b myo3b other upstream 702489 17127881 ~ 17198590 (+)
col28a2a LOC103355072,LOC104961148,LOC102781941 other upstream 877519 16988071 ~ 17023560 (+)
dap1b dapl1 other upstream 1799437 16099271 ~ 16101642 (+)
LOC120570321 NA other upstream 1923205 15970982 ~ 15977874 (+)
hnrnpa3 hnrnpa3 other downstream 101161 18010757 ~ 18017413 (+)
G125079 NA other downstream 793432 18703028 ~ 18704528 (+)
LOC120570507 NA other downstream 909157 18818753 ~ 18827547 (+)
tmsb4x NA other downstream 1179822 19089418 ~ 19090785 (+)
igsf3 LOC103352919,LOC104967650 other downstream 1478419 19388015 ~ 19459274 (+)

Expression


Co-expression Network