CI01000001_02289890_02291109 (HOXC6.S, HOXC6, HOXC6BA, HOXC6AB, HOXC6A, HOXC6AA)


Basic Information

Item Value
gene id CI01000001_02289890_02291109
gene name HOXC6.S, HOXC6, HOXC6BA, HOXC6AB, HOXC6A, HOXC6AA
gene type coding
species grasscarp (Ctenopharyngodon idella)
category of species economic fish

Chromosome Information

Item Value
chromosome id CI01000001
NCBI id null
chromosome length 13537560
location 2289090 ~ 2291744 (-)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome

Sequence

>CI01000001_02289890_02291109.mRNA
AATTGTAAAAACCCATCTTTCAGGTAATTAACTGAGAGGAAAATTAGCTCATTGTAAAATGCATGATTCTCCAGGATAAGTCTTGATTTACCTTCACAATACACGTGGAGAAGCTTTATACCGACACAGAGAACAGATTAACTCGCTGATTAATGCACAAAAAGACGTAATTCATTGTTCGTGTGAGTGCTTATTCTGTATTTGTGTGTGTGTTTACTTAAACTTTATCAACTGAAGCCACAAGGATAAGAAGCTACAAGCTCGATATTCCTCCGTACACAGCGCATTCAATTGGCTGAAAGTGGTCAGGTGACGCTGTCATATTGTCCTTCCATGAGCCAAGCCTTGGCTATAACACTTGCTTTGCGCGTCTTAACCGGAGACTGGAAATTAATATTATTGAAATCCTTCTGAAGTTCATTTGAAAGAGAGTTAGGAAAGCAGGCGGGAGACGTGTGTATGTGACAGAAGGAAGCAGACCCCATAGCACAAAGAACGAAAGTGTGAGATTAAGAGAGGGGAAATAAGATAGGAGGGTGAGTTGATGAGAGGGCGATAGGAAAGGTATGAATTCGTATTTCGCGAACCCGTCGCTCTCGTGCCATTTATCTGGTGGGCAAGAGGTTTTGCCCAACATGCCACTGAACACGACCACATATGATTCAGTCAGACATTTTTCGTCTTATGGCACCACAGTGACCCAAAACCGGATTTATGCGTCCCCTTTCTATTCACCTCAAGATAACGTTGTGTTTGGATCAAGTCGAGGACCGTACGAGTATGGATCTAACGTGTTTCTTCAAGATAAGGATGTGCTTCCCAGTTGCAGACAAACTAGTATGGGACTCAGTGCGCAGAGCCACGTTGCCCAGGAGTACAACCTGGAACAAGCTCGTGCAGGAACGCAGGATCAGAAAGGGAACAACATTCAGATCTACCCGTGGATGCAGCGCATGAACTCGCACAGCGGAGTTGGGTACGGGTCAGACAGAAGAAGAGGTCGCCAGATTTATTCCAGATACCAAACCTTGGAACTGGAAAAAGAATTTCACTTCAATCGGTATTTAACCAGACGCAGACGCATCGAGATCGCCAACGCTCTGTGCCTAACCGAGCGTCAAATCAAAATCTGGTTCCAGAATAGGCGCATGAAATGGAAGAAAGAGACCAATCTAACTTCTACTGTACCGGGGACCGAATCAACGGGTACTCCTCAAGACACCGAGAAGGAGACCGAGGAGGAAACCGAGGAAGCTAAAAAAAAAGATTAGGAAATCAATTTCCCGTTCTCGAACGCCTGTTAACTGCAACGTAACTACCTAAACGGAGAATTTGCAAATATTAATGCATGGACTATATACTCTGCTATTCCTTTTGACTGCCCCCTCCTCCTCCGACCTGAACACCATACTCAAGCTCTTCTACTACCACCACGCCACTAACATATACACACGTAGAAACAAATGGAGAGATTGAGAGAGAGAAAGACGCACATGTTATCTACCATAAAGCAATTCACTTCTCTTTGTATTGAAAATAGTTCCTTATTGGCTGCGTGATGACAATGCCACAGCTGAAATATTTGTGTGGTTCTAGTATTATCATGTTGCTATATAGGCTAGTAGAAAATTACATTAGATGAAAATGTATTCGAATTTGATTAGTAGGCTACGTCTCCCAAACTATTAAGCCTCTTAACTGTACCCTAAGCATTCCAGAAGTGAAGGAAACTTCTTATATGCACATTCAGTTTTTTTGTGGATGCATATTTGTACAATGAAACAAACACTGACGGGATGAATTATACTACCTAAATCCTTAATACGTGTTATTTTCCTTTTTTTTGTTTTTTTGTTAATATTACTTTTGCCTCGTCAGTGTTCTGTTGTTCAAAATGCCGCTGTACTGGCACATTAACTATGGAGAGAATTTCAAGAAAAATACATTTCATCATATTGTAGTTGTGTGCATATAAACTTGTCTTAAAGTGAGAATTACACTCATATGAAAACAAACATATACCTTGGTACGCAATTATATTGTTTGTGTAAACTGTGTATTATTTAATAAA

Function

symbol description
hoxc6a 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. Is expressed in several structures, including ectoderm; mesoderm; nervous system; pectoral fin; and somite. Orthologous to human HOXC6 (homeobox C6).
hoxc6 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 cytosol and nucleoplasm.

NR:

description
Hoxc6a protein

GO:

id name namespace
GO:0043565 sequence-specific DNA binding molecular_function

KEGG:

id description
K09306 HOX_6; homeobox protein HoxA/B/C6

RNA

RNA id representative length rna type GC content exon number start site end site
CI01000001_02289890_02291109.mRNA True 2071 mRNA 0.41 2 2289090 2291744

Neighbor

gene id symbol gene type direction distance location
CI01000001_02286306_02287855 HOXC5A coding downstream 1088 2286263 ~ 2288002 (-)
CI01000001_02274875_02276207 HOXC4, HOXC4A coding downstream 12321 2274292 ~ 2276769 (-)
CI01000001_02258523_02262621 NA coding downstream 25987 2258442 ~ 2263103 (-)
CI01000001_02236985_02242725 HOXC1A coding downstream 45097 2236582 ~ 2243993 (-)
CI01000001_02173311_02179118 NA coding downstream 108103 2172770 ~ 2180987 (-)
CI01000001_02301569_02304543 HOXC8, HOXC8AB, HOXC8AA, XHOXC8, HOXC8A, HOXC8BA, HOXC8.S coding upstream 9391 2301135 ~ 2304572 (-)
CI01000001_02305032_02310500 HOXC9, HOXC9A, HOXC9AA, HOXC9AB coding upstream 13258 2305002 ~ 2311082 (-)
CI01000001_02318724_02321379 HOXC10A coding upstream 26980 2318724 ~ 2321379 (-)
CI01000001_02327669_02329891 HOXC11, HOXC11AA, HOXC11AB, HOXC11A coding upstream 35925 2327669 ~ 2329891 (-)
CI01000001_02339253_02340813 HOXC12AB, HOXC12A, HOXC12AA, HOXC12BA, HOXC12 coding upstream 47509 2339253 ~ 2340813 (-)
G14304 NA non-coding downstream 134207 2154382 ~ 2154883 (-)
G14301 NA non-coding downstream 137634 2151126 ~ 2151456 (-)
G14300 NA non-coding downstream 140153 2148714 ~ 2148937 (-)
G14297 NA non-coding downstream 145725 2143141 ~ 2143365 (-)
G14293 NA non-coding downstream 170524 2118355 ~ 2118566 (-)
G14335 NA non-coding upstream 76114 2367858 ~ 2368107 (-)
G14194 NA non-coding upstream 106411 2398155 ~ 2398918 (-)
G14344 NA non-coding upstream 111433 2403177 ~ 2403748 (-)
G14214 NA non-coding upstream 178451 2470195 ~ 2473589 (-)
G14445 NA non-coding upstream 332563 2624307 ~ 2624520 (-)
G14228 NA other downstream 232612 2055974 ~ 2056478 (-)
G14219 NA other downstream 294192 1994210 ~ 1994898 (-)
G14104 NA other downstream 521632 1763669 ~ 1771468 (-)
CI01000001_00362143_00378213 NA other downstream 1891957 361614 ~ 378213 (-)
CI01000001_00238241_00249437 NA other downstream 2031573 238241 ~ 249437 (-)
CI01000001_04395469_04399381 FKBP1B.L, FKBP1B, FKBP1AA, FKBP1AB, FKBP1A, FKB1B, FKB1A other upstream 2100570 4392314 ~ 4399804 (-)
CI01000001_04468566_04523431 DNMT3BB.1 other upstream 2184540 4468209 ~ 4523431 (-)
CI01000001_04726550_04727511 PDPFB, PPDPFB, PPDPF other upstream 2277338 4725927 ~ 4728210 (-)
G15736 NA other upstream 2509157 4800901 ~ 4801395 (-)
G16332 NA other upstream 2658945 4950689 ~ 4957842 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
zebrafish (Danio rerio) XLOC_021864 hoxc6a coding NC_007134.7 CM002907.2 36115541 ~ 36116907 (+)
bowfin (Amia calva) AMCG00008805 hoxc6ba,LOC108433405,LOC103034651 coding CM030126.1 CM030126.1 12463038 ~ 12465622 (+)