CI01000001_02236985_02242725 (HOXC1A)


Basic Information

Item Value
gene id CI01000001_02236985_02242725
gene name HOXC1A
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 2236582 ~ 2243993 (-)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome

Sequence

>CI01000001_02236985_02242725.mRNA
ATTTAAAATGAAGCGATGGTTAAACTTACCCATAATAAAACTCTTTGTACTTTTATATTTTTTTAATGAAACGACTATATTTAACGAATTAAATTCTTTAATGATATTGTCAGTTTATCTTGCTATTTGTTTTGAAAAAATAAATATTTCTTCAAATAAAAAGTTAAATACTTTTCGTATAAAGCGGTTGATTACTGCAGGGGAGGCAGCTGCTAATTATCATCTGACCGACGAATGACCCTCAACGACAGCTGTTTAGAGCACAGATAATCACTCAGAAATCTCATACAATGACTTTATGATTCCCTTTTAACATCATTTCAGCTGTTATGTTAGATTCCCTGTGGCTATTGAATTATACACAGTTTTTTTCCCCTAAGTATGGAGACTCTTTGCGTTGAACAAATCTGTTTTAAAGATAAATAGATCGGAATTTGAAAAAAGTTTAAGTCTAAAATAACACAAGGAGGAATGCAAGTGTTACCTGAGAGATACGTTTCTAAGTTTCTTTTCAAAGTTTAAATGAAGCAACAATCGTCAAGCTTTATATAATTGGCGTGAACCACAAGATCCATGGCTTTCCCATTAACATCTATTGACAATGGCTTAAGACCTTATTCGGGTAAGCTAAGGCTGCTATACTGACTAAACATGTCATTGATTTTCTGTGCGTGCTCATCTGAAACGTGGACACGGACCGGGCCTTCCGAGAAAAAAAACAACAATATGAAGACAATTGTATGTCTAAATAATATTTTTGATAGGGTAACTTAAATTTAAAACACAATACTAGTCCTGCTAAATTATTTGGGTCTGAAACAAACAGAACAAAGAATCTATTAATATCCTAAATGTGACTTTTAACAAATGCCTTGACATTTGTGCAAAATTCACACCAGAAATCATCCAGTGCGCTTTGATTAAATTCAATATTATCCATTAAGAAATGTAGTACTGATGTTGACCCCTCTCCGCACACGCGCGAGCACACACACTCCACGAGACCTTATTAGCAGGTCAAATAAGTCATTCAAACTTGCTTGCTTTGGTAAATTAACGCTCACTCAGATGAGGGAGATGTCCGGCTATTGGCCAAGAGTTAGAGGGCACGTCATCCCCATCCATCACCGATCGAATGTTTCTACAAGGCATGTCCCTGTCTAGATCTGTGCCTCTGTCCTTTTGCGCGCTATGTGTGGCATCTGTGGATGGAGTTTCTGTCGCGTCCAGCCTCGAATGAAAATCTGGAATATATATGAGATGCAGCCATGAATTCTTATCAAGGGTTCAGGGACACAACGTCACTTTTCAAGGGCTATCATGCTACTGGAGTAATGCGTCTGCATCAGGACCACGGAGCTACTACTGACTTCCCAAGCAGAGAGGAGGGACATGTCAACAACACCGAGGCGGATTTTCTTCAATACCATTTCACGAATCTCAGTGCCACGGCCACAGGCGCGTGTTCAAAGCCCTGTGAGGACCTTGGTCCTGCTAACTCGACCAGACCCCCCTTCCCCCATAATCAAGATTTCTATAGACCAGTGCACCCCGTCCGACCCCAAGTCCCCTCCTTCCAAAGCTGTCGTGAGCAGGGTCTCTCCAGAACGGGCTTCTCGCCTTCCTCAGACACTTTAAGAACTTTCTCCGGCGCGCTTTGTGAACTCGGCCCTGTCAACAACACACACCTCGAAGTGCTCACACGCGACGGCCCAGTGCATCACCCTCCAATCAAGGACGATAGCACCAGACACGAGGCTCTAAACACGTTAAATGAGACCTTGCAAAGTGAAAAGACTTTCGACTGGATGAGAGTGAGGAGAAATCAGTCTCGTGCAGCTAAGACACAGCTGGGCAGCTGCTCGGACCCGGAGCTGAAGACGGACCACGGACGAGATCCTGACGAGGACCCCTCGAGTGGAGCCTCGCGAACTAATTTTACCACCAAACAACTCACAGAACTGGAAAAGGAGTTTCATTTCAACAAATATCTGACTCGAGCTAGACGGATAGAGATCGCGAACACTCTCCAACTGAGCGAAACACAAGTGAAGATCTGGTTTCAAAACAGACGCATGAAACAGAAGAAAATGCTGCGGGAAGGCCTCGTTCCGGGATTAATGCTGGTTTCTGCCTGTGATGAGGACTCGAAAAAAACAGACACTTGTTCATCTCCTGACAAAAGATAATTTCATTTGGGTAAGATTGTTGGAACGGCTGCACTAAAATATTAACAATCACGTGAATATCATGCGCGAGAGCAAGAGAGTAAATATTTACACACCCAAAATGAAGCTTGCCCACTAAACATAAATATTTATCTATTCGGTTGTATTGTTTAAGAAATTAAAGCAGTGGCTCTCAATGATAAAAATGAAGTTTGCTCACCTGTTGAGGCAAGCGGAGAAATCATGAATTAAAATGCACTTTATAGCTATGTCTTCCTTTATTGTTTTATTTGCTAGCCTATATGTTTTATCATTATGAATTTGCTTCTGGATCAGAAAATGAATCATTACAATTAATAGATCTCATCAGGGTCGAGGGCAAAAGTGCCAAGAAAAGTGACAAAATTGATATTTAAAAAATAAA

Function

symbol description
hoxc1a 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 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 axis; nervous system; neural tube; notochord; and pectoral fin bud. Orthologous to human HOXD1 (homeobox D1).

NR:

description
homeobox protein, partial

GO:

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

KEGG: NA

RNA

RNA id representative length rna type GC content exon number start site end site
CI01000001_02236985_02242725.mRNA True 2592 mRNA 0.41 2 2236582 2243993

Neighbor

gene id symbol gene type direction distance location
CI01000001_02173311_02179118 NA coding downstream 55595 2172770 ~ 2180987 (-)
CI01000001_02159372_02162554 HNRNPA1, ROA1 coding downstream 74028 2159159 ~ 2162554 (-)
CI01000001_02141590_02142836 COPZ1, COPZ1.L, COPZ1-B coding downstream 93596 2141560 ~ 2142986 (-)
CI01000001_02126257_02127537 NA coding downstream 109015 2125065 ~ 2127567 (-)
CI01000001_02057429_02071506 LIMA1A coding downstream 165076 2056814 ~ 2071506 (-)
CI01000001_02258523_02262621 NA coding upstream 14449 2258442 ~ 2263103 (-)
CI01000001_02274875_02276207 HOXC4, HOXC4A coding upstream 30299 2274292 ~ 2276769 (-)
CI01000001_02286306_02287855 HOXC5A coding upstream 42270 2286263 ~ 2288002 (-)
CI01000001_02289890_02291109 HOXC6.S, HOXC6, HOXC6BA, HOXC6AB, HOXC6A, HOXC6AA coding upstream 45097 2289090 ~ 2291744 (-)
CI01000001_02301569_02304543 HOXC8, HOXC8AB, HOXC8AA, XHOXC8, HOXC8A, HOXC8BA, HOXC8.S coding upstream 57142 2301135 ~ 2304572 (-)
G14304 NA non-coding downstream 81699 2154382 ~ 2154883 (-)
G14301 NA non-coding downstream 85126 2151126 ~ 2151456 (-)
G14300 NA non-coding downstream 87645 2148714 ~ 2148937 (-)
G14297 NA non-coding downstream 93217 2143141 ~ 2143365 (-)
G14293 NA non-coding downstream 118016 2118355 ~ 2118566 (-)
G14335 NA non-coding upstream 123865 2367858 ~ 2368107 (-)
G14194 NA non-coding upstream 154162 2398155 ~ 2398918 (-)
G14344 NA non-coding upstream 159184 2403177 ~ 2403748 (-)
G14214 NA non-coding upstream 226202 2470195 ~ 2473589 (-)
G14445 NA non-coding upstream 380314 2624307 ~ 2624520 (-)
G14228 NA other downstream 180104 2055974 ~ 2056478 (-)
G14219 NA other downstream 241684 1994210 ~ 1994898 (-)
G14104 NA other downstream 469124 1763669 ~ 1771468 (-)
CI01000001_00362143_00378213 NA other downstream 1839449 361614 ~ 378213 (-)
CI01000001_00238241_00249437 NA other downstream 1979065 238241 ~ 249437 (-)
CI01000001_04395469_04399381 FKBP1B.L, FKBP1B, FKBP1AA, FKBP1AB, FKBP1A, FKB1B, FKB1A other upstream 2148321 4392314 ~ 4399804 (-)
CI01000001_04468566_04523431 DNMT3BB.1 other upstream 2232291 4468209 ~ 4523431 (-)
CI01000001_04726550_04727511 PDPFB, PPDPFB, PPDPF other upstream 2325089 4725927 ~ 4728210 (-)
G15736 NA other upstream 2556908 4800901 ~ 4801395 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
zebrafish (Danio rerio) XLOC_021869 hoxc1a coding NC_007134.7 CM002907.2 36178104 ~ 36190988 (+)