CI01000049_04473766_04475768 (GM10043, LSM6, SNRPF, BRAFLDRAFT_125735)


Basic Information

Item Value
gene id CI01000049_04473766_04475768
gene name GM10043, LSM6, SNRPF, BRAFLDRAFT_125735
gene type misc
species grasscarp (Ctenopharyngodon idella)
category of species economic fish

Chromosome Information

Item Value
chromosome id CI01000049
NCBI id null
chromosome length 9665442
location 4473662 ~ 4476270 (+)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome

Sequence

>CI01000049_04473766_04475768.mRNA
GTATAAATTAATCTCAGTTCTGTAGCCCGTGACATGCATAATGTGTCCATTGTGCACCACATTGGATTGTAATGCTAGCAGGCTAAGTTAGCCGCTCATGCTAAATGTACACCGGTGATGTTCAGAATATGCTGAATAAACAGCCAAACCTCTGCACACTACAGTGGTTTAAATCATTCGTTGTCTGGTTCATTAAAAATGTGTTTAGTATAGTCAAGAAAATGAGTCTCCGGAAGCAGACACCAAGTGATTTCCTGAAGCAGATCATTGGGAGACCAGTGGTGGTGAAGCTGAACTCTGGTGTTGATTACAGAGGAGTGCTGGCCTGCCTTGATGGCTACATGAATATCGCTGTGGAACAGACAGAGGAATATGTCAATGGCCAGCTGAAGAACAAGTATGGGGATGCATTTCTCAGAGGAAACAATGTGTTATACATCAGCACCCAGAAGAGGAAGATGTGAAGCCATTTAACTTGTTTCTTTATTCATTGTTAGATAAGTGAATTGTTTACTGTTGATATTCATAATCCTTTGTTAGCTGACAATAATGTCTAAGCTTATTTCATGTTTTGTAACACAAAATGTGGAGTCTTGCCAAGAGGTGCAGTAAATCATTTGTTTTTCAACAATAGATTTTGTGTTTTCCTGATTTATCTGTTCCTGAGATGCTTCTATGAATATTTAAATAGTGATAATTCAGTCATAAGGAATTGCTAATTAGCACTTTCAAGACTTGGAGGTTATTCAAGGCACCTTTATCTACATATTTAATATTCACTGCTGCTTTAATATACATTCTGTTTTGCATTTGGTCTACTATAGCCCTCTATTTCATGGTCATGTTCTTTGTTTTCAAATGAATCAATAGTTTTTGAACCCTGATCTGCTTGGGCTGGTGTTGTCTGCCCCTTTCTAACCTTTCTGTGTACATTAGGATGCCCTA

Function

symbol description
snrpf Predicted to enable RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to act upstream of or within spliceosomal snRNP assembly. Predicted to be located in nucleus and viral nucleocapsid. Predicted to be part of U1 snRNP and catalytic step 2 spliceosome. Orthologous to human SNRPF (small nuclear ribonucleoprotein polypeptide F).
lsm6 Predicted to enable RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome and maturation of SSU-rRNA. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in nucleus. Predicted to be part of U4/U6 x U5 tri-snRNP complex; U6 snRNP; and sno(s)RNA-containing ribonucleoprotein complex. Predicted to be active in P-body and nucleolus. Orthologous to human LSM6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated).

GO:

id name namespace
GO:0046540 U4/U6 x U5 tri-snRNP complex cellular_component

KEGG:

id description
K12625 LSM6; U6 snRNA-associated Sm-like protein LSm6

RNA

RNA id representative length rna type GC content exon number start site end site
CI01000049_04473766_04475768.mRNA False 945 mRNA 0.38 4 4473662 4476249

Neighbor

gene id symbol gene type direction distance location
CI01000049_04357318_04365664 NA coding upstream 107992 4357318 ~ 4365670 (+)
CI01000049_04345574_04350571 MMAA coding upstream 122803 4345574 ~ 4350859 (+)
CI01000049_04338384_04339298 NA coding upstream 133795 4338139 ~ 4339867 (+)
CI01000049_04277549_04287107 NA coding upstream 186218 4277549 ~ 4287444 (+)
CI01000049_04219938_04257323 HHIP coding upstream 216339 4219938 ~ 4257323 (+)
CI01000049_04590737_04592306 POU4F2 coding downstream 114488 4590737 ~ 4593092 (+)
CI01000049_04704214_04715966 EDNRAA coding downstream 227071 4703320 ~ 4716713 (+)
CI01000049_04724881_04735050 TMEM184C coding downstream 248632 4724881 ~ 4735119 (+)
CI01000049_04750403_04799247 ARHGAP10 coding downstream 274154 4750403 ~ 4800460 (+)
CI01000049_04865442_04887290 NA coding downstream 386722 4862971 ~ 4887379 (+)
G208176 NA non-coding upstream 92055 4377256 ~ 4381607 (+)
G208173 NA non-coding upstream 155019 4318392 ~ 4318643 (+)
G208144 NA non-coding upstream 265816 4207369 ~ 4207846 (+)
G208130 NA non-coding upstream 306323 4167084 ~ 4167339 (+)
G208110 NA non-coding upstream 321893 4148581 ~ 4151769 (+)
G208240 NA non-coding downstream 536 4476785 ~ 4477491 (+)
G208243 NA non-coding downstream 19476 4495725 ~ 4495913 (+)
G208507 NA non-coding downstream 30956 4507205 ~ 4507805 (+)
G208517 NA non-coding downstream 33991 4510240 ~ 4510465 (+)
G208536 NA non-coding downstream 44311 4520560 ~ 4520789 (+)
G208074 NA other upstream 591451 3877396 ~ 3882211 (+)
G207888 NA other upstream 849351 3624002 ~ 3624311 (+)
CI01000049_01840330_01843844 FGF8B other upstream 2629834 1839815 ~ 1844077 (+)
G209660 NA other downstream 2401884 6878133 ~ 6882030 (+)
CI01000049_07219171_07224229 NA other downstream 2742599 7218811 ~ 7224268 (+)
G210091 NA other downstream 3397501 7873750 ~ 7878856 (+)
CI01000049_08326623_08329601 NA other downstream 3851703 8326285 ~ 8329915 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
zebrafish (Danio rerio) XLOC_000426 lsm6 coding NC_007112.7 CM002885.2 36194761 ~ 36204000 (+)
tiger barb (Puntius tetrazona) G32956 NA non-coding NC_056703.1 CM032072.1 3388301 ~ 3389487 (+)