RetrogeneDB ID: | retro_sscr_1210 | ||
Retrocopylocation | Organism: | Pig (Sus scrofa) | |
Coordinates: | X:95054248..95055340(-) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSSSCG00000012496 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | PABPC4 | ||
Ensembl ID: | ENSSSCG00000003660 | ||
Aliases: | None | ||
Description: | poly(A) binding protein, cytoplasmic 4 (inducible form) [Source:HGNC Symbol;Acc:8557] |
Percent Identity: | 66.03 % |
Parental protein coverage: | 57.69 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 3 |
Parental | YPMASLYVGDLHSDVTEAMLYEKFSPAGPVLSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVI |
Y..A.LYVGDL..DVTE.MLY.KF.PAGP....R.CRD..TR..LGY.YVN...PADAE.AL.TMNFD.I | |
Retrocopy | YLKAALYVGDLAPDVTEDMLYKKFRPAGPLRFTRICRDPVTRSPLGYGYVNSRFPADAEWALNTMNFDLI |
Parental | KG-KPIRIMWSQRDPS-LRKSGVGNVFIK-NLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYAFVH |
.G..P.R.MWSQ.D...L.KSGVGN.FIK.NLDKSIDN.AL...FSAFGNILSCKVVCD.NGSKGYA.VH | |
Retrocopy | TG<QPFRLMWSQPDDA<LEKSGVGNIFIK<NLDKSIDNRALFYLFSAFGNILSCKVVCDDNGSKGYAYVH |
Parental | FETQEAADKAIEKMNGMLLNDRKVFVGRFKSRKEREAELGAKAKE-FTNVYIKNFGEEVDDENLKELFSQ |
F....AA..AI..MNG..LN.R.V.VGRFK...ER.AE........FTNV..KNFGE..DD..LKE.FS. | |
Retrocopy | FDSLAAANRAIWHMNGVRLNNRQVYVGRFKFPEERAAEVRTRDRATFTNVFVKNFGEDMDDDKLKEIFSE |
Parental | FGKTLSVKVMRDPSGKSKGFGFVSYEKHEDANKAVEEMNGKEISGKVIFVGRAQKKVERQAELKRKFEQL |
.G.T.SVKV.RD.SGKSKGFGFV.YE.HE.A.KAV....GK.I.GKV..VGRAQKK.ER.AEL.R.FE.L | |
Retrocopy | YGPTESVKVIRDASGKSKGFGFVRYETHEAAQKAVLDLHGKSIDGKVLYVGRAQKKIERLAELRRRFERL |
Parental | KQERISRYQGVNLYIKNLDDTIDDEKLRKEFSPFGSITSAKVMLEDGRSKGFGFVCFSSPEEATKAVTEM |
.....SR..GV..YIKNLD.TIDDEKL...FS.FGSIT.AKVM.E.G..KGFG.VCFSS.EEATKAV.EM | |
Retrocopy | RLKEKSRPPGVPIYIKNLDETIDDEKLKEQFSSFGSITRAKVMVEVGQGKGFGVVCFSSFEEATKAVDEM |
Parental | NGRIVGSKPLYVALAQRK |
NGR.VGSKPL.V.L.Q.. | |
Retrocopy | NGRVVGSKPLHVTLGQAR |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP014902_placenta | 0 .00 RPM | 231 .22 RPM |
SRP014902_testis | 2 .55 RPM | 201 .70 RPM |
SRP018288_heart | 0 .00 RPM | 115 .04 RPM |
SRP018288_kidney | 0 .00 RPM | 59 .20 RPM |
SRP018288_liver | 0 .00 RPM | 85 .23 RPM |
SRP018288_lung | 0 .31 RPM | 48 .16 RPM |
SRP018856_adipose | 0 .94 RPM | 136 .76 RPM |
SRP035408_brain | 0 .54 RPM | 63 .71 RPM |
SRP035408_liver | 0 .00 RPM | 96 .90 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Ailuropoda melanoleuca | ENSAMEG00000011535 | 2 retrocopies | |
Bos taurus | ENSBTAG00000017125 | 3 retrocopies | |
Canis familiaris | ENSCAFG00000003081 | 2 retrocopies | |
Choloepus hoffmanni | ENSCHOG00000005327 | 3 retrocopies | |
Equus caballus | ENSECAG00000009396 | 2 retrocopies | |
Felis catus | ENSFCAG00000015254 | 2 retrocopies | |
Loxodonta africana | ENSLAFG00000000151 | 3 retrocopies | |
Microcebus murinus | ENSMICG00000016633 | 1 retrocopy | |
Myotis lucifugus | ENSMLUG00000012068 | 2 retrocopies | |
Monodelphis domestica | ENSMODG00000017657 | 2 retrocopies | |
Mustela putorius furo | ENSMPUG00000014414 | 2 retrocopies | |
Mus musculus | ENSMUSG00000011257 | 7 retrocopies | |
Rattus norvegicus | ENSRNOG00000015642 | 2 retrocopies | |
Sarcophilus harrisii | ENSSHAG00000018139 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000000402 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000003660 | 3 retrocopies |
retro_sscr_1210 , retro_sscr_974, retro_sscr_975,
|
Sus scrofa | ENSSSCG00000006063 | 2 retrocopies | |
Tursiops truncatus | ENSTTRG00000014340 | 2 retrocopies |