RetrogeneDB ID: | retro_sscr_355 | ||
Retrocopylocation | Organism: | Pig (Sus scrofa) | |
Coordinates: | 13:192326969..192327520(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSSSCG00000021535 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | HNRNPA1 | ||
Ensembl ID: | ENSSSCG00000000288 | ||
Aliases: | HNRNPA1, HNRPA1, ROA1 | ||
Description: | Sus scrofa heterogeneous nuclear ribonucleoprotein A1 (HNRNPA1), mRNA. [Source:RefSeq mRNA;Acc:NM_001077218] |
Percent Identity: | 84.32 % |
Parental protein coverage: | 57.5 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 1 |
Parental | GTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKK |
G...DCVV.RDPN.KR.RGFGFVTYA.VEEVDAAMNA...HK.DGRVVEPKR..SREDSQRPGAHLTVKK | |
Retrocopy | GECSDCVVRRDPNIKRPRGFGFVTYAIVEEVDAAMNA<KLHKLDGRVVEPKRVFSREDSQRPGAHLTVKK |
Parental | IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCE |
IFVGGIKEDT.EHHLR.YFE.YGKIEV.EIMTDRGSG.KRGFAFVTFDDHDS.DK.V.QKYHT..G.NCE | |
Retrocopy | IFVGGIKEDTQEHHLREYFEEYGKIEVTEIMTDRGSGRKRGFAFVTFDDHDSADKTVVQKYHTMTGQNCE |
Parental | VRKALSKQEMASASSSQRGRSGSGNFGGGRGGGFGGNDNFGRGGN |
VR.ALSKQ.MASASSSQRG.SGSGNFGGG.GGGFGGNDNFG.GGN | |
Retrocopy | VRRALSKQKMASASSSQRGQSGSGNFGGGQGGGFGGNDNFGCGGN |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP014902_placenta | 0 .13 RPM | 131 .14 RPM |
SRP014902_testis | 0 .00 RPM | 558 .29 RPM |
SRP018288_heart | 0 .00 RPM | 232 .78 RPM |
SRP018288_kidney | 0 .00 RPM | 264 .09 RPM |
SRP018288_liver | 0 .00 RPM | 139 .60 RPM |
SRP018288_lung | 0 .00 RPM | 394 .98 RPM |
SRP018856_adipose | 0 .00 RPM | 544 .18 RPM |
SRP035408_brain | 0 .00 RPM | 569 .43 RPM |
SRP035408_liver | 0 .00 RPM | 287 .36 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Cavia porcellus | ENSCPOG00000020972 | 1 retrocopy | |
Mustela putorius furo | ENSMPUG00000004620 | 1 retrocopy | |
Mustela putorius furo | ENSMPUG00000005735 | 2 retrocopies | |
Oryctolagus cuniculus | ENSOCUG00000013350 | 1 retrocopy | |
Oreochromis niloticus | ENSONIG00000012248 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000000288 | 3 retrocopies |
retro_sscr_354, retro_sscr_355 , retro_sscr_861,
|
Sus scrofa | ENSSSCG00000015988 | 6 retrocopies |