hoxc13a (hoxc13,hoxc13a,LOC108275585,LOC103031462,LOC107715003)


Basic Information

Item Value
gene id hoxc13a
gene name hoxc13,hoxc13a,LOC108275585,LOC103031462,LOC107715003
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 20336971 ~ 20340547 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026920340.2
GGAGTCGTTACCGGAGTCACGTGCCTGCACATTAATGAACCGGACGCGCAGACCTCGGCGTGCGCATGCGCGTGCGTAAAATGTAGTTGGAAATGAGGTATCGCTGTGGAGTAGTCGACTTTTAAAAAGCATCTGCAGCCCATGATATGACGACTTCGCTGGTCTTGCATCCACGCTGGGCGGACACCTTGATGTACGTTTATGAAAAAAGCCCGAATGAAAGTGGTCAGAATAAAAATCAAGCTATGGAGGGACTGAGCGGGAATTGCCCTGCGACCCACTGCAGGGATCTTATCTCGCACCCAGCTTTGGGGCGACATTCGGGCACCATCACAACTCACCAGGGCACCGTGTACTCGGATATATCCTCACCTGACGCAGGAAGACAGTGTCCCGCGCCTCAGACGTCGTCCAGCGCCTCTCTGGGCTATAGTTACCCGTTTGGAAACCCGTACTACGGCTGCAGGCTGTCTCATTCGCACAACGTGAACTTGCAGCAGAAGCCGTGCTCGTATCATCCCGCAGATAAATACACCGAGCCCAGTACGGCACTGCCTACCGAGGAGCTCTCCAGCAGGGCAAAGGAATTCGCTTTCTACCCCAGCTTCGCCGGCTCATATCAGGCGGTTCCTGGCTATCTCGATGTGTCGGTGGTCCCCAGCATAAGCGCACATCCCGAGCCCCGACACGACGCGCTGATTCCAATGGAGGGCTATCAGCACTGGGCTCTGTCAAACGGCTGGGATGGGCAGGTGTACTGTTCAAAGGAACAAACACAGTCGTCTCATCTTTGGAAATCTCCTTTTCCAGatgtcgTCCCGTTGCAACCTGAGGTTAGCAGTTACCGGAGAGGACGCAAAAAGCGTGTTCCCTACACCAAGATCCAACTGAAGGAACTGGAGAAAGAGTACGCAGCCAGCAAATTCATCACTAAAGACAAAAGAAGACGCATCTCTGCTACCACCAATCTGTCTGAGCGTCAAGTTACTATTTGGTTTCAGAACCgcagagtgaaagagaagaaaTTTATCAGCAAATCTAAGGCGAACAATCACATGCACACTTAATGGATGCCCCACGAATTGCTTTCCAGCTGATCTCATTACCTTCTGAAAGTCTGATATTTACTTCTTCTCAAAAACCATGAACGAAGAAAACCCGAGGCCGTGTCACATCACCCAAGTCTggctttactttatttaattaaaaaaaaaatatatgcacatgATTTAATAATCGCTCACCTGTAAGCTTTAAGGGACATAGGCCATGCCCTAAAAACTGTGAACATATTGAAAATCATTTCGACTTTGCTCTTTTCTAtgaatgtacatatataaatatataatatttaaaatatttgggTTTCCAAGAGACAGTTTGGTCATGTGCTTTGTTCCAGTGATAAAAGGAGACACGAACATTTGTTGATGTGTAACAGTCAGTGCAAAAATCAGCAGAAACACACAAGGACTTTTAACTCGCATGAAGTATTAATAGTAAATTCGTATCTGAAAATTATGTTTGAATGAGAACAAACTGGAGAttcaaaagaaaacattgaACACTGAATGTGTGATGTCTCAAACAGAGCCATGCACCATCGTTTTTTTGGTGGCAGGAGTACACAGGTTTATTTCCAAAAAGCCTTCGAGATTTCAAAAGCTAAATGTTTCACTGTGGGATACATTACTTTTTAATGCCGATGGTAAACCAGGCTGCTAATGTTAACTGTACAGTGCAatgtctttattatttaattcatgtTCTGGCAAATGACAGGGCTGTAAAATAGAATGTGTCAAGATCATCTtagtgtcctttttttttttttttttttaagcagt

Function

symbol description
hoxc13a Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within fin regeneration. Predicted to be located in nucleus. Is expressed in pronephric duct; pronephros; and tail bud. Human ortholog(s) of this gene implicated in ectodermal dysplasia 9. Orthologous to human HOXC13 (homeobox C13).
hoxc13 Enables DNA-binding transcription factor activity; DNA-binding transcription factor binding activity; and transcription cis-regulatory region binding activity. Involved in positive regulation of transcription, DNA-templated. Predicted to be located in nucleus. Predicted to be part of chromatin. Implicated in ectodermal dysplasia 9.

NR:

description
homeobox protein Hox-C13a

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0007275 multicellular organism development biological_process
GO:0031101 fin regeneration 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
K09298 HOX_13; homeobox protein HoxA/C/D13

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026920340.2 True 1847 mRNA 0.45 2 20336971 20340547

Neighbor

gene id symbol gene type direction distance location
rarga rarg,rarga,LOC107715005,LOC107593976,LOC107697942,LOC107664174,LOC107707012 coding upstream 68184 20232088 ~ 20268787 (+)
gdap1l1 gdap1l1,LOC107594051,LOC107664149,LOC108433413,LOC107707014,LOC107697944 coding upstream 138319 20183237 ~ 20198652 (+)
LOC113530927 tuba1a,Tuba1a,tuba1c,LOC108255233,LOC108275946,LOC107664173,LOC108431527,LOC102311436,LOC105935211 coding upstream 181875 20147178 ~ 20155096 (+)
pmelb LOC108275940 coding upstream 198673 20129706 ~ 20138298 (+)
ccnt1 ccnt1,ccnt2,LOC102787965 coding upstream 209313 20119950 ~ 20127658 (+)
hoxc12a hoxc12a,LOC108275575,LOC108433365,LOC103031159,LOC107664239,LOC107593973,LOC107697936,LOC107715004 coding downstream 6612 20347159 ~ 20350929 (+)
hoxc11a hoxc11,LOC108276183,LOC107715002,LOC108433364,LOC107593971,LOC107706974,LOC107664237 coding downstream 17625 20358172 ~ 20361279 (+)
hoxc10a hoxc10 coding downstream 25910 20366457 ~ 20370016 (+)
hoxc8a hoxc8,hoxc8a,LOC108433404,LOC107593970,LOC107664222,LOC107598875,LOC103032829,LOC107697938,LOC107714926 coding downstream 29549 20370096 ~ 20386828 (+)
hoxc9a hoxc9,hoxc9a,LOC107697937,LOC107707007,LOC103033146,LOC107593969,LOC107598864,LOC107714960 coding downstream 36681 20377228 ~ 20380030 (+)
G257803 kansl2,LOC107716132,LOC107591080 non-coding upstream 227745 20108390 ~ 20109226 (+)
G257802 kansl2,LOC107716132,LOC107687436 non-coding upstream 232931 20101008 ~ 20104040 (+)
G257814 NA non-coding upstream 237473 20099230 ~ 20099498 (+)
LOC113530699 NA non-coding upstream 266723 20058251 ~ 20070248 (+)
G258097 hoxc9,hoxc8,LOC107714926,LOC107664222,LOC103032829,LOC107593970 non-coding downstream 29448 20369995 ~ 20386813 (+)
G258156 csad,LOC107599458,LOC107706996,LOC107697858 non-coding downstream 227243 20567790 ~ 20576789 (+)
G258162 NA non-coding downstream 270994 20611541 ~ 20657067 (+)
G258273 NA non-coding downstream 323135 20663682 ~ 20680938 (+)
G258275 LOC108276173 non-coding downstream 341823 20682370 ~ 20756538 (+)
si:ch73-206d17.1 LOC108275771 other upstream 631908 19625529 ~ 19705063 (+)
G257622 LOC108276210 other upstream 858076 19478302 ~ 19478895 (+)
pkig NA other upstream 1114412 19198426 ~ 19222559 (+)
fmnl3 LOC108276057,LOC108425567,LOC107716159 other upstream 1402652 18879481 ~ 18934319 (+)
LOC113530386 slc26a9 other upstream 3148594 17175701 ~ 17188377 (+)
G258096 hoxc6,hoxc6a,LOC107593966,LOC108433405,LOC107664205,LOC107714999,LOC103034651 other downstream 50262 20390809 ~ 20398714 (+)
LOC113530729 hnrnpa1,LOC108275985,LOC108275986,LOC107707002,LOC107714994 other downstream 169697 20510244 ~ 20514195 (+)
ubxn10 ubxn10,LOC108275535,LOC108433381,LOC107385551,LOC107699345 other downstream 562558 20903105 ~ 20907459 (+)
si:ch73-290k24.5 LOC108275473 other downstream 887773 21228320 ~ 21238999 (+)
LOC117599233 NA other downstream 1197498 21538045 ~ 21542427 (+)

Expression


Co-expression Network