hoxc4a (hoxc4,hoxc4a,LOC108433407,LOC103034018,LOC107714997,LOC107598886,LOC107664204)


Basic Information

Item Value
gene id hoxc4a
gene name hoxc4,hoxc4a,LOC108433407,LOC103034018,LOC107714997,LOC107598886,LOC107664204
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 20411373 ~ 20413861 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026920558.2
gttttactatgcaaaatgcattattattttgcacttgTTTCATTGGTATAACTACTGCCAATAAGTTATTCGACCTGTTAAAAGGTAAAGATGCAGCAGGTGCAGTATTTCGAAATCACTCTTTCCAATTTAAGTTTCAGTTCACTCAAAGCAAGATATGAGTAACTATTTTAATACAATTTGTCTGGGAGTCTTTGGCAACCAAATGGCAACTGATGGTACACGTGTGGCAAAAAGAACGGGCCTCTCGCGCACGCAcatgcaagagagagagagagagagagagagagagagagctttccTACACAATGGCGGAAAATTAAAGGTATGTCTGCGAAAAGCTTTGGTTCCTTATCCGGGGACTGCTTCGGCCGCTGCCATTGGGCCGCGACGTCACGTGGTCAAAGTAACTTTACAGGGTTGCTCGCTAGTAGGAGGGCTTTATGGAGCAGAAAAACGCCAAAGCTAGAAAAATTATTTCCCACTCCAGAAATTAATGATCATGAGCTCGTATTTGATGGACTCTAACTACATCGATCCGAAATTTCCTCCTTGCGAGGAATATTCGCAAAATAACTACATCCCCGAACACAGTCCCGAATATTACAGCCGCGCCAGGGACGGCAGCTACCAGCATCACCACCAAGAGTTGTACCCTCCGCGGGCAAACTACCAGGAGCGCCAGTACAACTGCGCCAGCATCCCCGAGCCCGATGCCCAGAGAGGACATGGACTACCTCATTCGGGCCACCTGCTCGGGAAAGGGCAGCCTGTCTCATGTGAGCCCCCCCAGTTGCCCCTGTCCCCGGCCACTCCACCGGCAGCCTCCTCAGCCTGCAATCAAGCCACTCCGGAGCATCCCAACAGCACAGCCTCGGCCAAGCAGCCAGTTGTTTACCCATGGATGAAGAAAATTCACGTCAGCACCGTGAACTCTAATTACAATGGAGGGGAGCCCAAGCGGTCTAGAACTGCTTACACCCGTCAGCAAGTGTTAGAACTGGAGAAGGAATTCCACTATAATCGCTACTTAACGCGACGAAGACGTATCGAGATCGCTCATTCCCTGGTTCTCTCCGAGAGGCAGATCAAAATTTGGTTTCAGAACCGCCGGatgaagtggaaaaaagatCACAGGCTACCAAACACCAAAGTCAGATCCTCATCCTCCGGCATGTCCTCCGGCTCCAACACAGGCTCTTCGGCAGGCGTTGTAGCGGCCGCCTCGACCAGTAACTCCATGGCAGCCAACGAGGAGCTCTCCGGATCCGAGCGAGAGGATATTACGAGGTTATGAGAGAACTATTCCTCGGAGAGAAGGAAGGGAACAGCTCAAAatgactgatttatttatataacaggatatatatttttgcttttgtttttccactttattatattttattttcttttatttttggtaGGTATCTTGTGCGCCCGAAGGGTTTGCTTTAAGTCCACAGTTATATAAAGTGCATGTTATATAGCATGGATTATTGCGAATACCTATTACTTTTACGCGAAACAGGGTTTAATTTATCTACTGACACAGGATGTTTTTATCTCCAGATAAAAGGGTTTTTGGACAAGGCAGTTTATGGACACTATATTCATGTTATTGAGGGCCTCTCTAAGCCCAGCTGCCAAGGTGAAGTGCACAAATGTTctatttatttcacacacaagaCTGAAGGAAGTTGcttttatactgtaaatgaaaaaataatatcgACAATTCCGATAGAAAACTGACCTTGAACGTCTTTGTTGATCTGAGAACAACATGCTGTGACTTAAGTGTCGTATGAAAAGGTTAAAATCTTAAATTATCTTTTACTTTTGTTGTGATGGCGTTGTGTTTAGGCTATTAAACCAGATTATTGTGAGATGCAATAAATCGACTTTAGTGTATTTGTGATAATATTGGTCAATAAAAGTAAGTGTCTGTTAGTTTTA

Function

symbol description
hoxc4a 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; embryonic skeletal system morphogenesis; 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. Is expressed in several structures, including margin; nervous system; presumptive paraxial mesoderm; swim bladder bud; and tail bud. Orthologous to human HOXC4 (homeobox C4).
hoxc4 Enables DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in positive regulation of transcription by RNA polymerase II. Located in nucleoplasm.

NR:

description
PREDICTED: homeobox protein Hox-C4 isoform X1

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
K09304 HOX_4; homeobox protein HoxA/B/C/D4

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026920558.2 True 1956 mRNA 0.44 2 20411373 20413861

Neighbor

gene id symbol gene type direction distance location
hoxc5a hoxc5 coding upstream 8830 20399696 ~ 20402543 (+)
hoxc6a hoxc6,hoxc6a,LOC108433405,LOC107593966,LOC103034651,LOC107664205,LOC107714999,LOC107706971,LOC107697939 coding upstream 12629 20394933 ~ 20398744 (+)
hoxc8a hoxc8,hoxc8a,LOC108433404,LOC107593970,LOC107664222,LOC107598875,LOC103032829,LOC107697938,LOC107714926 coding upstream 24545 20370096 ~ 20386828 (+)
hoxc9a hoxc9,hoxc9a,LOC107697937,LOC107707007,LOC103033146,LOC107593969,LOC107598864,LOC107714960 coding upstream 31343 20377228 ~ 20380030 (+)
hoxc10a hoxc10 coding upstream 41357 20366457 ~ 20370016 (+)
hoxc1a NA coding downstream 25393 20439254 ~ 20446982 (+)
copz1 copz1,LOC107664248 coding downstream 123845 20537706 ~ 20544797 (+)
lima1a LOC108275931 coding downstream 172306 20586167 ~ 20610713 (+)
igfbp6b igfbp6,igfbp6b,LOC108433391,LOC107697925,LOC107599019 coding downstream 247545 20661406 ~ 20666057 (+)
pip4k2ca pip4k2c,pip4k2ca,LOC107598997,LOC107714989,LOC107664235,LOC107697923,LOC107593957 coding downstream 254252 20668113 ~ 20680070 (+)
G258097 hoxc9,hoxc8,LOC107714926,LOC107664222,LOC103032829,LOC107593970 non-coding upstream 24560 20369995 ~ 20386813 (+)
G257803 kansl2,LOC107716132,LOC107591080 non-coding upstream 302147 20108390 ~ 20109226 (+)
G257802 kansl2,LOC107716132,LOC107687436 non-coding upstream 307333 20101008 ~ 20104040 (+)
G257814 NA non-coding upstream 311875 20099230 ~ 20099498 (+)
G257813 NA non-coding upstream 345365 20065477 ~ 20066008 (+)
G258156 csad,LOC107599458,LOC107706996,LOC107697858 non-coding downstream 153929 20567790 ~ 20576789 (+)
G258162 NA non-coding downstream 197680 20611541 ~ 20657067 (+)
G258273 NA non-coding downstream 249821 20663682 ~ 20680938 (+)
G258275 LOC108276173 non-coding downstream 268509 20682370 ~ 20756538 (+)
LOC117599265 NA non-coding downstream 283124 20696985 ~ 20699668 (+)
G258096 hoxc6,hoxc6a,LOC107593966,LOC108433405,LOC107664205,LOC107714999,LOC103034651 other upstream 12659 20390809 ~ 20398714 (+)
si:ch73-206d17.1 LOC108275771 other upstream 706310 19625529 ~ 19705063 (+)
G257622 LOC108276210 other upstream 932478 19478302 ~ 19478895 (+)
pkig NA other upstream 1188814 19198426 ~ 19222559 (+)
fmnl3 LOC108276057,LOC108425567,LOC107716159 other upstream 1477054 18879481 ~ 18934319 (+)
LOC113530729 hnrnpa1,LOC108275985,LOC108275986,LOC107707002,LOC107714994 other downstream 96383 20510244 ~ 20514195 (+)
ubxn10 ubxn10,LOC108275535,LOC108433381,LOC107385551,LOC107699345 other downstream 489244 20903105 ~ 20907459 (+)
si:ch73-290k24.5 LOC108275473 other downstream 814459 21228320 ~ 21238999 (+)
LOC117599233 NA other downstream 1124184 21538045 ~ 21542427 (+)
LOC113530514 LOC108275916 other downstream 2257537 22671398 ~ 22680542 (+)

Expression


Co-expression Network