RetrogeneDB ID: | retro_cfam_711 | ||
Retrocopylocation | Organism: | Dog (Canis familiaris) | |
Coordinates: | 16:42036531..42037743(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSCAFG00000028501 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | SF3B4 | ||
Ensembl ID: | ENSCAFG00000011617 | ||
Aliases: | None | ||
Description: | splicing factor 3b, subunit 4, 49kDa [Source:HGNC Symbol;Acc:10771] |
Percent Identity: | 85.5 % |
Parental protein coverage: | 95.52 % |
Number of stop codons detected: | 3 |
Number of frameshifts detected | 2 |
Parental | MAAGPISER-NQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADY |
MAAG.I..R.NQDATVY.GGLDEKV..PLLWELFLQAGPVV.THMPKDRVTGQHQGYGFVEFLS.EDAD. | |
Retrocopy | MAAGWI*SR<NQDATVYIGGLDEKVGKPLLWELFLQAGPVVSTHMPKDRVTGQHQGYGFVEFLSGEDADC |
Parental | AIKIMNMIKLYGKPIRVNKASAHNKNLDVGANIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTG |
AIKIMNMIKLYGKPIRVNK.SAHN.NLDVGANIFI.NLDP.ID..LL.D.F.AFGVILQ.PKIM.DPDTG | |
Retrocopy | AIKIMNMIKLYGKPIRVNKTSAHNSNLDVGANIFIDNLDPGIDGNLLHDSFNAFGVILQPPKIMWDPDTG |
Parental | NSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFKKDSKGERHGSAAERLLAAQNPLSQADRPHQ |
NSKGYAFINFASFDASDA..EAMN.QYL.NRPIT.SYAF.KD.KG.RHGSA.ERLLAAQNPLSQAD.PHQ | |
Retrocopy | NSKGYAFINFASFDASDAVTEAMNRQYLGNRPITASYAF-KDFKGLRHGSAVERLLAAQNPLSQADHPHQ |
Parental | LFADAPPPPSAPNPVVSSLGSGLPPPGMPPPGSFPPPVPPPGALPPGIPPAM-PPPPMPPGAGGHGPPSA |
LFADAPP.PSAPNPVVSSLGSGLPPPGMPPPGSF.P.V.PPGALPPGIPPAM.PP.PMPP.AGGH.PPSA | |
Retrocopy | LFADAPPLPSAPNPVVSSLGSGLPPPGMPPPGSFAPLVLPPGALPPGIPPAM>PPTPMPPRAGGHSPPSA |
Parental | GTPGAGHPGHGHSHPHPFPPSGMPHPGMSQMQLAHHGPHGLGHPHAGPPGSGGQPPPRPPPGMPHPGPPP |
G.PGA..PGHGHSHPHPFPPSGMP.PGMSQMQLAHHGPHG.GHPHAGPPG.GG..PP.PPPGMPHPGPPP | |
Retrocopy | GIPGARRPGHGHSHPHPFPPSGMPRPGMSQMQLAHHGPHGPGHPHAGPPGTGGHLPPQPPPGMPHPGPPP |
Parental | MGLPPRGPPFGSPMGHPGPMPPHGMRGPPPLMPPHGYTGPPRPPPYGYQRGPLPPPR |
M..PP.GP..GSPMGHPGPMPPHGM.GPPPL.PP.GYTGPP..PP.GYQRGPLPPPR | |
Retrocopy | MDMPP*GPLYGSPMGHPGPMPPHGMLGPPPLVPPCGYTGPP*SPPSGYQRGPLPPPR |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP012049_cerebellum | 0 .00 RPM | 40 .36 RPM |
SRP017611_brain | 0 .00 RPM | 20 .96 RPM |
SRP017611_kidney | 0 .00 RPM | 23 .51 RPM |
SRP017611_liver | 0 .00 RPM | 8 .77 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Bos taurus | ENSBTAG00000012495 | 2 retrocopies | |
Canis familiaris | ENSCAFG00000011617 | 3 retrocopies |
retro_cfam_585, retro_cfam_711 , retro_cfam_729,
|
Canis familiaris | ENSCAFG00000013514 | 1 retrocopy | |
Callithrix jacchus | ENSCJAG00000000793 | 3 retrocopies | |
Cavia porcellus | ENSCPOG00000008267 | 1 retrocopy | |
Echinops telfairi | ENSETEG00000008963 | 1 retrocopy | |
Homo sapiens | ENSG00000143368 | 1 retrocopy | |
Gorilla gorilla | ENSGGOG00000004761 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000007256 | 1 retrocopy | |
Mustela putorius furo | ENSMPUG00000005563 | 2 retrocopies | |
Oryctolagus cuniculus | ENSOCUG00000004614 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000000912 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000001243 | 1 retrocopy | |
Pteropus vampyrus | ENSPVAG00000014171 | 1 retrocopy | |
Rattus norvegicus | ENSRNOG00000021181 | 1 retrocopy | |
Ictidomys tridecemlineatus | ENSSTOG00000000684 | 2 retrocopies |