RetrogeneDB ID: | retro_sscr_975 | ||
Retrocopylocation | Organism: | Pig (Sus scrofa) | |
Coordinates: | 8:98244990..98245950(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
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: | 75.31 % |
Parental protein coverage: | 50.71 % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 0 |
Parental | YVNFQQPADAERALDTMNFDVIKGKPIRIMWSQRDPSLRKSGVGNVFIKNLDKSIDNKALYDTFSAFGNI |
YVNF.Q.ADA..ALDTMNFD.IKGK.IR.MWSQRD..LRKSG.GNVFIKNLDKSIDNK.LY..FSAFG.I | |
Retrocopy | YVNFLQLADALKALDTMNFDLIKGKSIRLMWSQRDAYLRKSGIGNVFIKNLDKSIDNKTLYEHFSAFGKI |
Parental | LSCKVVCDENGSKGYAFVHFETQEAADKAIEKMNGMLLNDRKVFVGRFKSRKEREAELGAKAKEFTNVYI |
LS.KV..D..GS.GYAFVHF..Q.AAD.AIE.MNG.LL.D...FVGRFK.RK.REAEL..KA.EFTNVYI | |
Retrocopy | LSSKVMSDDQGSRGYAFVHFQNQIAADRAIEEMNGALLKDCRLFVGRFKNRKDREAELQNKANEFTNVYI |
Parental | KNFGEEVDDENLKELFSQFGKTLSVKVMRDPSGKSKGFGFVSYEKHEDANKAVEEMNGKEISGKVIFVGR |
KNFG...DDE.LKE.FS..GKTLSVKVMRD.SGKSKGFGFVS...HE.A.KAVEEMNGK.I.G...FVGR | |
Retrocopy | KNFGDDMDDERLKEVFSKYGKTLSVKVMRDSSGKSKGFGFVSFDSHEAAKKAVEEMNGKDINGQLLFVGR |
Parental | AQKKVERQAELKRKFEQLKQERISRYQGVNLYIKNLDDTIDDEKLRKEFSPFGSITSAKVMLEDGRSKGF |
AQKK.ERQAELK..FEQLK.ER..R.QGV.LYIKNLD.TIDDEKLR.EFS.FGSI...KVM.E.GRSKGF | |
Retrocopy | AQKKAERQAELKQMFEQLKRERFRRCQGVKLYIKNLDETIDDEKLRREFSSFGSISRVKVMQEEGRSKGF |
Parental | GFVCFSSPEEATKAVTEMNGRIVGSKPLYVALAQRKEERK |
G..CFSSPEEATKA.TEMNGRI.GSKPL..ALAQ....RK | |
Retrocopy | GLICFSSPEEATKAMTEMNGRILGSKPLNIALAQKP*DRK |
* | 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 | 0 .00 RPM | 201 .70 RPM |
SRP018288_heart | 0 .05 RPM | 115 .04 RPM |
SRP018288_kidney | 0 .10 RPM | 59 .20 RPM |
SRP018288_liver | 0 .00 RPM | 85 .23 RPM |
SRP018288_lung | 0 .10 RPM | 48 .16 RPM |
SRP018856_adipose | 0 .00 RPM | 136 .76 RPM |
SRP035408_brain | 0 .00 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 |