RetrogeneDB ID: | retro_sscr_625 | ||
Retrocopylocation | Organism: | Pig (Sus scrofa) | |
Coordinates: | 2:70571091..70571867(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | PABPN1 | ||
Ensembl ID: | ENSSSCG00000002023 | ||
Aliases: | None | ||
Description: | poly(A) binding protein, nuclear 1 [Source:HGNC Symbol;Acc:8565] |
Percent Identity: | 74.06 % |
Parental protein coverage: | 86.27 % |
Number of stop codons detected: | 3 |
Number of frameshifts detected | 1 |
Parental | GAGDYGNGLESEELEPEELLLEPEPEPEPE-EEPPRPRAPPGAPGPGPGSGAPGSQEEEEEPGLVEGDPG |
G.GD.G....S..L..EELLLEP.PEPEPE.E..........A.G.GPG.GAP.S..EEEEPG.VEG..G | |
Retrocopy | GVGDAGDCVNS--LQSEELLLEPKPEPEPEEEXXXXXXXXATALGSGPGLGAP-SHQEEEEPGMVEGGLG |
Parental | DGAIEDPELEAIKARVREMEEEAEKLKELQNEVEKQMNMSPPPGNAGPVIMSIEEKMEADARSIYVGNVD |
DGAI.DPE.EAIK..V.EME.EAEKL.ELQNEV..QMNM.PPP.N.GP.I.S.E.K.EAD.RSIYVGNVD | |
Retrocopy | DGAIKDPEMEAIK--VGEMEKEAEKLRELQNEVK*QMNMNPPPRNTGPGIVSTE-KTEADTRSIYVGNVD |
Parental | YGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALDESLFRGRQIKVIPKRTN |
.GATAEELEAHFHGCGSVN..TILCDKFSGHPKGFAYIEFS.K.SVRTSLAL.ESLFRGRQIKVIPK.TN | |
Retrocopy | SGATAEELEAHFHGCGSVNHNTILCDKFSGHPKGFAYIEFSEKGSVRTSLALHESLFRGRQIKVIPKGTN |
Parental | RPGISTTDRGFPRARYRARTTNYNSSRSRFYSGFNSRPR-GRVYRGRARATSWYSP |
R.GISTTD.GFPRA.Y.A.TTNY.SS.SR.YSGFN.RPR.G.VYRG.AR.TSWYSP | |
Retrocopy | RLGISTTDQGFPRA*YHAQTTNYDSSCSRIYSGFNCRPR<GHVYRG*ARVTSWYSP |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP014902_placenta | 0 .00 RPM | 33 .05 RPM |
SRP014902_testis | 0 .14 RPM | 161 .96 RPM |
SRP018288_heart | 0 .03 RPM | 51 .16 RPM |
SRP018288_kidney | 0 .00 RPM | 149 .73 RPM |
SRP018288_liver | 0 .00 RPM | 89 .07 RPM |
SRP018288_lung | 0 .00 RPM | 91 .75 RPM |
SRP018856_adipose | 0 .15 RPM | 85 .98 RPM |
SRP035408_brain | 0 .13 RPM | 249 .07 RPM |
SRP035408_liver | 0 .00 RPM | 122 .50 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Bos taurus | ENSBTAG00000006884 | 1 retrocopy | |
Callithrix jacchus | ENSCJAG00000007960 | 4 retrocopies | |
Dipodomys ordii | ENSDORG00000002873 | 1 retrocopy | |
Homo sapiens | ENSG00000100836 | 1 retrocopy | |
Gorilla gorilla | ENSGGOG00000022683 | 2 retrocopies | |
Mustela putorius furo | ENSMPUG00000006775 | 1 retrocopy | |
Mus musculus | ENSMUSG00000022194 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000015009 | 2 retrocopies | |
Otolemur garnettii | ENSOGAG00000008710 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000005663 | 2 retrocopies | |
Pan troglodytes | ENSPTRG00000006168 | 2 retrocopies | |
Sus scrofa | ENSSSCG00000002023 | 1 retrocopy |
retro_sscr_625 ,
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