AMCG00008102 (prpf6,LOC107673318,LOC107705744,LOC102793577)


Basic Information

Item Value
gene id AMCG00008102
gene name prpf6,LOC107673318,LOC107705744,LOC102793577
gene type misc
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030123.1
NCBI id CM030123.1
chromosome length 53548854
location 42413632 ~ 42437228 (+)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00008102
ATGGCTAGAGGGTCGAGGAACAATTCAAATGCATCAGGAGGGTCGAGGAACAATTCAAATGCATCAGGAGGCTCGAATagtggcggcggcggcggcggcggtggAGGAGGCGGGTTAACCTCCAGTCTCTCCGGGGCCGGGGCAGCGTCGGCCCTCACCGGGACGCTcaacaagaagaagaagccTTTCCTGGGGATGCCTGCGCCCCTGGGATATGTACCTGGCCTCGGCAGAGGCGCCACTGGGTTCACCACTCGCTCTGATATCGGTCCTGCCCGCGATGCCAACGACCCGGTGGATGATCGCCATGCTCCCCCGGGAAAAAGGACCGTGGGGGATCAGATGAAGAAGAACCAGgcggatgatgatgatgaagatctCAACGACACCAATTATGATGAGTTTAACGGCTATGCTGGCAGTCTCTTCTCAAGCGGACCATATGAAAAGGATGATGAGGAAGCAGACGCCATTTATGCAGCTCTGGACAAGAGAATGGAtgaaagaaggaaagagagaagagAACAGCGAGAGAAGGAAGAGATTGAGAAATACCGTATGGAGCGTCCCAAAATTCAGCAGCAGTTTTCTGACCTTAAGAGGAAGCTCGCTGAGGTCACAGAAGATGAATGGCTCAGTATTCCGGAAGTGGGCGATGCCCGAAACAAGCGTCAGAGGAACCCTCGCTATGAGAAACTCACACCTGTGCCAGACAGCTTCTTCGCCAAGCACCTGCAGACAGGAGAAAACCATACCTCGGTGGATCCCAGGCAAGGGAATTTCGGGCTTAATACTCCGTTCCCTGGAGGGCTGAACACCCCCTACCCCGGAGGAATGACACCTGGCCTCATGACCCCAGGCACAGGTGAGCTGGACATGAGGAAGATCGGCCAGGCCAGGAACACGCTGATGGACATGAGGCTCAGTCAGGTGTCTGATTCGGTCAGCGGACAGACCGTTGTCGACCCAAAGGGCTACCTGACTGATCTGAACTCCATGATACCTACCCACGGTGGTGACATCAACGATATCAAGAAGGCCCGCTTGCTGTTGAAATCTGTGCGGGAAACCAACCCTCACCACCCCCCTGCCTGGATCGCCTCGGCCCGTCTGGAGGAGGTGACAGGCAAACTGCAGGTGGCCAGGAACCTCATCATGAAGGGCACGGAGATGTGTCCCAAAAGTGAGGACGTGTGGCTGGAGGCGGCCCGGCTGCAGCCCGGAGACACGGCCAAGGCTGTGGTGGCCCAGGCGAACGTGTCAAAGTCCGTGCGGCTGTGGAAGGCCGCGGTGGAGCTGGAGGAGCCGGAGGATGCCAGGATCATGCTCAGCAGGGCGGTGGAGTGCTGTCCCACCAGCGTGGAGCTTTGGCTGGCGCTTGCCAGGCTGGAGACCTATGAGAACGCTAGACGGGTCCTGAACAAGGCACGAGAGAACATCCCCACCGACAGACACATCTGGATCACAGCAGCCAAGCTGGAGGAGGCCAATGGCAACACGCAGATGGTTGAGAAGATCATCGACAGAGCCATCACTTCTCTGCGTGCCAATGGAGTGGAAATCAACAGAGAGCAGTGGATTCAGGATGCAGAGGAGTGTGATAAGGCTGGCAGTGTGGTTACCTGTCAGGCTGTCATTCGAGCCGTCATTGGCATCGGCATTGAAGAGGAAGACTGCAAGCACACCTGGATGGAGGATTCTGAAAGTTGCATTGCTCATGGTGCCCTGGAGTGTGCAAGAGCCATTTATGCCCACGCCCTGCAGGTCTTCCCCAGCAAGAAGAGTGTGTGGCTGCGGGCGGCCTACTTTGAGAAGAACCACGGGACCAGGGAGTCTCTAGAAGCTCTCCTACAGAGGGCTGTGGCTCACTGTCCCAAGGCCGAGGTCCTGTGGCTCATGGGAGCGAAGTCAAAGTGGCTGGCTGAGGACGTGCCTGCAGCGAGAAGCATCCTGGCTTTAGCTTTTCAGGCAAACCCGAACAGTGAAGAGATCTGGCTGGCAGCCGTGAAGCTCGAGTCTGAGAACAATGAGTACGAGCGGGCGAGGAGACTGCTGGCCAAGGCCCGGAGCAGTGCACCCACCGCCAGGGTGTTTATGAAATCAGTGAAGCTGGAGTGGGTGTTGGGGAATATCGCAGCTGCTCAGGAGCTGTGTGCCGAGGCCCTGAAACATTACGAAGACTTCCCCAAGCTCTGGATGATGAAGGGACAGATAGAGGAGCAGTCAGAGAACATGGACAAGGCTCGAGAGGCCTACAACCAAGGGCTGAAGAAATGCCCGCAGTCCATTGCTCTGTGGCTcctcctctcccgcctggaagAGAAGGCTGGCCAGCTGACTCGAGCCAGAGCCATCCTGGAGAAATCCCGACTGAAGAACCCCCAGAACCCGGACCTGTGGCTGGAGTCTGTCAGACTGGAGTACAGAGCGGGTCTCAAGAATATCGCGAACACGCTGATGGCCAAGGCCCTGCAGGAGTGTCCCAGCTCCGGAATACTTTGGGCAGAAGCAATTTTCCTCGAAGCCCGACCTCAACGGAAGACCAAGAGTGTAGACGCTTTGAAGAAATGTGAACATGATCCTCACGTCTTGCTTGCAGTAGCAAAATTATTCTGGAGTGAGAGGAAAATAACAAAGTCTAGAGAGTGGTTTCTCAGGACCGTGAAAATCGAACCAGACCTGGGGGATGCCTGGGCTCTCTTCTATAAGTTTGAACTTCAACATGGAACTGAGgagcagcaggaggagATCCGGAAGCGCTGTGAGAACGCCGAGCCGCGGCACGGGGAGCTGTGGTGTGCCGAGTCCAAACACATCCTCAACTGGCAGAAGAAGATCGGAGAGATCCTCGTCCAAGTCTCCTCTAAGATCAGAAACACCTTCTGAACAGCATTCCTTGTTTTTATACCCCAAATAAAAGTTCCCAGAGCCACATCAGACCACATTGCAAGCAtgctttgcttttgaaatggcATGTAAACTGAAGGCTTTGTATTTAGCTTTTTCCCCTCCCCTTAAATGAatcaatatgtatattaaaatactgttttggaTTTCATCAGCTTTGGATTGGCAGTGCTTTTTCCAGCTTCTTTCTTTTCCACTTTGGTTTTGAGGCTATGATGTTGCCCTTTTCCAGTGACTGGAAAATGACTCATCGGCAGATTAAAAgtataaactgaaaaacatcttctttttaaagattttagttgttttcttttgcagtaTTTGATTAAGCAACAGTTATTTGAAACTGTTTATGATGTCCTGTGTATTGTTAGAATGCTTGAATGGTTTGAACCCTGTGTTTATAGTTCAGTATTTATGAGTACTGACCGGCTATACAAGCACAATGTTGTTCTAACTGTCATGTGATCACAAGCTGCTGCTTGTAAAATCCTGCTATCTTGTTTGCAATAAGTGTTATTTGTTAGGGAAGGGAGTAAAAATGCAGTCTGACACTTATGAATGAGCTGTAAACACCTGTGCTGTTGCATTAGATAAGTTATTTTCAGATGATGTTTCTAATAAAAGGTATTTGATTATTCTGA
>TU35677
GTTCCTGGCAGAACAAGATTCTGGTGAGGTAGATTAGCACGTCTCCAACAACCTGTCATCTTTGTGATTTACAAGGTTTTAGTTGAGTGTTTTCACACACGAACAGCAAAGTTATTGTAGTACTAATGTTGGTCAGCCAAGGACATTTGAAATGAGTGATCGGCTTTTACAAACCGTAGTAGACATGCACTTATTTGGCTGTTGAAATTAGTGAGTCCAAGTAGGTGGAGTGTGCAGTTTGTGAATTAATGTTTGAATTGGATCACGGTTTAGTGTGTTTGAGGTCAGAATTTGCTTAAGGAGATTAATTAATAACCCCTGTTAAAGATGCcagatataatttaattaaagttctGGGAATTGTGTGTAGTTGAGGGGTTCGGGGaagacataaatataaatatgaaagacTTAACTGGATGAGGATGTTTATAAGGAGCCGGGCATATGAGGGCTGTGTGGGAGAGACTTGAGCTGTTACTGTTGCATTGGCCGCTTCCACACATCTCTAGCTATTTCTGAAGTGCTTAAGTCCTGAGGGATGGTGTTTCAATAGCCTGTGTTTAGGAATACTTTGGGCAGAAGCAATTTTCCTCGAAGCCCGACCTCAACGGAAGACCAAGAGTGTAGACGCTTTGAAGAAATGTGAACATGATCCTCACGTCTTGCTTGCAGTAGCAAAATTATTCTGGAGTGAGAGGAAAATAACAAAGTCTAGAGAGTGGTTTCTCAGGACCGTGAAAATCGAACCAGACCTGGGGGATGCCTGGGCTCTCTTCTATAAGTTTGAACTTCAACATGGAACTGAGgagcagcaggaggagATCCGGAAGCGCTGTGAGAACGCCGAGCCGCGGCACGGGGAGCTGTGGTGTGCCGAGTCCAAACACATCCTCAACTGGCAGAAGAAGATCGGAGAGATCCTCGTCCAAGTCTCCTCTAAGATCAGAAACACCTTCTGAACAGCATTCCTTGTTTTTATACCCCAAATAAAAGTTCCCAGAGCCACATCAGACCACATTGCAAGCAtgctttgcttttgaaatggcATGTAAACTGAAGGCTTTGTATTTAGCTTTTTCCCCTCCCCTTAAATGAatcaatatgtatattaaaatactgttttggaTTTCATCAGCTTTGGATTGGCAGTGCTTTTTCCAGCTTCTTTCTTTTCCACTTTGGTTTTGAGGCTATGATGTTGCCCTTTTCCAGTGACTGGAAAATGACTCATCGGCAGATTAAAAgtataaactgaaaaacatcttctttttaaagattttagttgttttcttttgcagtaTTTGATTAAGCAACAGTTATTTGAAACTGTTTATGATGTCCTGTGTATTGTTAGAATGCTTGAATGGTTTGAACCCTGTGTTTATAGTTCAGTATTTATGAGTACTGACCGGCTATACAAGCACAATGTTGTTCTAACTGTCATGTGATCACAAGCTGCTGCTTGTAAAATCCTGCTATCTTGTTTGCAATAAGTGTTATTTGTTAGGGAAGGGAGTAAAAATGCAGTCTGACACTTATGAATGAGCTGTAAACACCTGTGCTGTTGCATTAGATAAGTTATTTTCAGATGATGTTTCTAATAAAAGGTATTTGATTATTCTGACTTCAGTGTGACTGAGACTATGTCTGACCACTTAAGAGAATGCCC

Function

symbol description
prpf6 Predicted to be involved in spliceosomal tri-snRNP complex assembly. Predicted to act upstream of or within mRNA processing. Predicted to be located in nucleus. Predicted to be part of U4/U6 x U5 tri-snRNP complex and catalytic step 2 spliceosome. Human ortholog(s) of this gene implicated in retinitis pigmentosa 60. Orthologous to human PRPF6 (pre-mRNA processing factor 6).

NR:

description
PREDICTED: pre-mRNA-processing factor 6

GO:

id name namespace
GO:0000398 mRNA splicing, via spliceosome biological_process
GO:0005634 nucleus cellular_component

KEGG:

id description
K12855 PRPF6, PRP6; pre-mRNA-processing factor 6

RNA

RNA id representative length rna type GC content exon number start site end site
AMCG00008102 True 3551 mRNA 0.52 22 42413632 42437183
TU35677 False 1672 lncRNA 0.41 4 42432836 42437228

Neighbor

gene id symbol gene type direction distance location
AMCG00008099 NA coding upstream 113293 42290716 ~ 42300339 (+)
AMCG00008098 dnajc5aa,LOC107668106,LOC108412505,LOC103036084,LOC107090698 coding upstream 124196 42279769 ~ 42289436 (+)
AMCG00008097 bhlhe23,LOC102799046,LOC107737661,LOC107560898 coding upstream 200547 42212372 ~ 42213085 (+)
AMCG00008092 ythdf1,LOC108437571,LOC107668064,LOC107549989,LOC107549491,LOC107678560 coding upstream 313252 42091557 ~ 42100380 (+)
AMCG00008094 NA coding upstream 341459 42071749 ~ 42072173 (+)
AMCG00008106 NA coding downstream 1115 42438343 ~ 42442423 (+)
AMCG00008105 NA coding downstream 7408 42444636 ~ 42448120 (+)
AMCG00008107 NA coding downstream 72659 42509887 ~ 42520350 (+)
AMCG00008110 slc9a8 coding downstream 115169 42552397 ~ 42579983 (+)
AMCG00008109 NA coding downstream 218963 42656191 ~ 42657239 (+)
G28421 NA non-coding upstream 227250 42117921 ~ 42186382 (+)
G28416 NA non-coding upstream 303557 42106867 ~ 42110075 (+)
G28394 NA non-coding upstream 433548 41977259 ~ 41980084 (+)
G28332 NA non-coding upstream 477418 41846992 ~ 41936214 (+)
G28329 NA non-coding upstream 685199 41728212 ~ 41728433 (+)
G28511 NA non-coding downstream 63446 42500674 ~ 42500981 (+)
G28527 NA non-coding downstream 147004 42584232 ~ 42586668 (+)
G28548 NA non-coding downstream 184722 42621950 ~ 42622157 (+)
G28637 NA non-coding downstream 671822 43109050 ~ 43120781 (+)
G28678 NA non-coding downstream 740574 43177802 ~ 43201203 (+)
G28395 NA other upstream 420255 41992859 ~ 41993377 (+)
AMCG00008051 kif3b,LOC106572821,LOC106566426 other upstream 1691887 40663972 ~ 40721745 (+)
AMCG00008036 fkbp1ab,fkbp1a,fkb1a,LOC105013763,LOC108435222,LOC107707744,LOC100705189,LOC107657066,LOC101476936 other upstream 2166394 40241312 ~ 40247238 (+)
G27974 NA other upstream 2354246 40056632 ~ 40059386 (+)
AMCG00008020 NA other upstream 2578680 39817027 ~ 39834952 (+)
G28636 LOC105922603,LOC105919618,LOC107100266,LOC103465560,LOC103147358,LOC102223196,LOC106964922,LOC106524088,LOC108244412,LOC107655056 other downstream 668485 43105713 ~ 43108242 (+)
AMCG00008120 NA other downstream 707577 43144805 ~ 43156072 (+)
AMCG00008132 NA other downstream 855368 43292596 ~ 43305530 (+)
AMCG00008177 rbm38,LOC101475440,LOC103365886,LOC105906784 other downstream 2585920 45023148 ~ 45036416 (+)
AMCG00008185 NA other downstream 2710169 45147397 ~ 45171828 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
zebrafish (Danio rerio) XLOC_022142 prpf6 coding NC_007134.7 CM002907.2 6998633 ~ 7052412 (-)
grasscarp (Ctenopharyngodon idella) G115681 NA non-coding CI01000021 null 867315 ~ 883125 (+)
bowfin (Amia calva) G105048 NA non-coding CM030133.1 CM030133.1 14065341 ~ 14065908 (-)