hoxc5a (hoxc5)


Basic Information

Item Value
gene id hoxc5a
gene name hoxc5
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047610.1
NCBI id CM018556.1
chromosome length 25111544
location 20399696 ~ 20402543 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026920561.2
GCAAAGCCCCTTTAACTTCCAAGGGAGACAAatcaaaaacaataaacaagatTAGTAACAACAAACAATCTATGTATGTTGTACGTTCATATCGGTTCTGGTGTGACTACGTGCTTCTAGTTGATTCCTTTCTTGTAGGCTACTTTGTATCGAAGTAGAATGAGCTCGTACGTGGGAAACTCTTTTTGTAACCAAACGCACGATGCACCCTCCTTTAGCATGCGCACTTTTGGTAACTATGGGGCTGTCTCAGAGTTTCAGCAGTCCACTTATGCTTACGGAGGGCTCGATCTCAGTGGAGCGTTAGCATCTCAAGTCGTTTCCGAGTCCCCGAAACGGGAGGCGATGAATAAGCACAACAGTGCCAGGATCAACGCGCCACCACATCGCCAGGCTTGCGCAGCAATGGGTTCCCCAAGTCGTGTCAGTACACGCGGGTACAACCTGCTCAGTCAAGGACTGTTGAGCCAAAAAGCAGAGATGATTATGGAAGTTACGGAAAAACCCAGCAGCAAAAGTCAGCCCGGTGATATGGAGATCACGCCAACGATTAAACAACAAACTAACTCGAGTGAGCGCCAGACCCAATCGCAACCGCAGATATACCCGTGGATGACCAAGCTACACATTAGCCACGACTCTGACGGTAAAAGGTCACGAACCAGTTACACCCGCTACCAGACTCTGGAGTTGGAGAAAGAGTTCCATTTCAACCGATACCTCACACGTCGCAGGCGAATCGAGATTGCCAATAACCTCTGCCTGAACGAGAGACAAATTAAAATTTGGTTCCAGAACCGTCGCATGAAGTGGAAGAAGGACTCAAAGCTGAAAGTTAAAGGTGCACTATAATGATAAGGTGGTATAGCAAATATACCTGCAAACAAGATGAAAACAagagttcattaatataaatgtttcaAAGTTCATGCTGTTCCAAACTGGCAATTACATATTATAACTGATAGATCACAATCTTAATTTAATGTAAGTATGTAACATATGTCCTCACAACTTGTTCAGCTGACGACACACTGACAACGGGGAGGAGCTTATTTGGGTCACACCCATCCAGAACTTACAGTAGGTTAACAAGTGAACATGCAATTCTAATTATTTAAAGagatattttattgtattttacgTAATTCAGTATTATTTGGTTTGCCTTCTGTACTTTATGTTTATATGTCTGATAGGATATATCTGTTTATAGGATGTGTCTGTAGTGATGAACTGCACGCAACAAAATGTCATATTACTCATTGTATGCTCCAATAACACGTTAGATAGTCATGCTTTATGTACCTGTTGTGAGTAATTTCAATTCACTGCTCAAAGAGAAgacttggaattttttttaatagtaaaaaaGGCTGTTTGGGTTCAAAGCTGTATTAGCATCAATGCGATGCAGCTCAGTAACAGAAAGTTTGCCCAGTGTAATGCTAAATACTCAAAGAGTTCAAGAGTTGCCcctatatatgtataaatgtagttTCTTAATCTACATTTTACAAATGTTACatgtgcaatgcataaaaaatcaaatgtggTTGGTGCAGcctaataatttaaataaacttatTACGAGATAGACTCTTTCAATCGTTATTCAGTTCGTTTTTAGCgagaaacatttacaaatatgcaacaaaaaaagaaaaaatatttctcatATACTGTACAAAGGCCCTAACCATTGCTCAGTGATCTCTGGTCTAGTTATGAGACGTTAGACCATATAGGCTCCACTTACTGATATTTAGATAGCcgagttaaacaaaaaaaaaaaaaaaaaaattgctcttgTATGTAAAGGTACCTGCAGGAGAATCATGCTACTCACAGATGAAATAATGAGGCACAATGGGATCTCTCTGGCCACATCCCTTGGGCCAATTATTTACAGTAGCCCTCAGACTGAGGCATAAAACTTTATGACCCCAATAAAGTTTTACTGCGTTTCCTCACA

Function

symbol description
hoxc5 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 embryonic skeletal system development. Located in cell junction and nucleoplasm.

NR:

description
homeobox protein Hox-C5a-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
K09305 HOX_5; homeobox protein HoxA/B/C5

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026920561.2 True 1975 mRNA 0.40 2 20399696 20402543

Neighbor

gene id symbol gene type direction distance location
hoxc6a hoxc6,hoxc6a,LOC108433405,LOC107593966,LOC103034651,LOC107664205,LOC107714999,LOC107706971,LOC107697939 coding upstream 952 20394933 ~ 20398744 (+)
hoxc8a hoxc8,hoxc8a,LOC108433404,LOC107593970,LOC107664222,LOC107598875,LOC103032829,LOC107697938,LOC107714926 coding upstream 12868 20370096 ~ 20386828 (+)
hoxc9a hoxc9,hoxc9a,LOC107697937,LOC107707007,LOC103033146,LOC107593969,LOC107598864,LOC107714960 coding upstream 19666 20377228 ~ 20380030 (+)
hoxc10a hoxc10 coding upstream 29680 20366457 ~ 20370016 (+)
hoxc11a hoxc11,LOC108276183,LOC107715002,LOC108433364,LOC107593971,LOC107706974,LOC107664237 coding upstream 38417 20358172 ~ 20361279 (+)
hoxc4a hoxc4,hoxc4a,LOC108433407,LOC103034018,LOC107714997,LOC107598886,LOC107664204 coding downstream 8830 20411373 ~ 20413861 (+)
hoxc1a NA coding downstream 36711 20439254 ~ 20446982 (+)
copz1 copz1,LOC107664248 coding downstream 135163 20537706 ~ 20544797 (+)
lima1a LOC108275931 coding downstream 183624 20586167 ~ 20610713 (+)
igfbp6b igfbp6,igfbp6b,LOC108433391,LOC107697925,LOC107599019 coding downstream 258863 20661406 ~ 20666057 (+)
G258097 hoxc9,hoxc8,LOC107714926,LOC107664222,LOC103032829,LOC107593970 non-coding upstream 12883 20369995 ~ 20386813 (+)
G257803 kansl2,LOC107716132,LOC107591080 non-coding upstream 290470 20108390 ~ 20109226 (+)
G257802 kansl2,LOC107716132,LOC107687436 non-coding upstream 295656 20101008 ~ 20104040 (+)
G257814 NA non-coding upstream 300198 20099230 ~ 20099498 (+)
G257813 NA non-coding upstream 333688 20065477 ~ 20066008 (+)
G258156 csad,LOC107599458,LOC107706996,LOC107697858 non-coding downstream 165247 20567790 ~ 20576789 (+)
G258162 NA non-coding downstream 208998 20611541 ~ 20657067 (+)
G258273 NA non-coding downstream 261139 20663682 ~ 20680938 (+)
G258275 LOC108276173 non-coding downstream 279827 20682370 ~ 20756538 (+)
LOC117599265 NA non-coding downstream 294442 20696985 ~ 20699668 (+)
G258096 hoxc6,hoxc6a,LOC107593966,LOC108433405,LOC107664205,LOC107714999,LOC103034651 other upstream 982 20390809 ~ 20398714 (+)
si:ch73-206d17.1 LOC108275771 other upstream 694633 19625529 ~ 19705063 (+)
G257622 LOC108276210 other upstream 920801 19478302 ~ 19478895 (+)
pkig NA other upstream 1177137 19198426 ~ 19222559 (+)
fmnl3 LOC108276057,LOC108425567,LOC107716159 other upstream 1465377 18879481 ~ 18934319 (+)
LOC113530729 hnrnpa1,LOC108275985,LOC108275986,LOC107707002,LOC107714994 other downstream 107701 20510244 ~ 20514195 (+)
ubxn10 ubxn10,LOC108275535,LOC108433381,LOC107385551,LOC107699345 other downstream 500562 20903105 ~ 20907459 (+)
si:ch73-290k24.5 LOC108275473 other downstream 825777 21228320 ~ 21238999 (+)
LOC117599233 NA other downstream 1135502 21538045 ~ 21542427 (+)
LOC113530514 LOC108275916 other downstream 2268855 22671398 ~ 22680542 (+)

Expression


Co-expression Network