RetrogeneDB ID: | retro_sscr_1222 | ||
Retrocopylocation | Organism: | Pig (Sus scrofa) | |
Coordinates: | Y:1068562..1069020(+) | ||
Located in intron of: | ENSSSCG00000025253 | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | HMGB1 | ||
Ensembl ID: | ENSSSCG00000009327 | ||
Aliases: | None | ||
Description: | high mobility group box 1 [Source:HGNC Symbol;Acc:4983] |
Percent Identity: | 72.9 % |
Parental protein coverage: | 71.63 % |
Number of stop codons detected: | 3 |
Number of frameshifts detected | 1 |
Parental | YAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKG-E |
..FFVQTC.EEHKK.HPDASV.FSEF.KK...RWKTMSAKEKGKF.D.AKADKA.Y.R..K.YIPPKG.E | |
Retrocopy | HSFFVQTCWEEHKKNHPDASVSFSEFYKKR*GRWKTMSAKEKGKFGDIAKADKACYKR*IKIYIPPKG<E |
Parental | TKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEK |
....FK..NAPK..PS.FFLF.SEY.PK.K.EHPGLSI.D.AKK.G.M.NNTAAD.KQPYEKK.A.LKEK | |
Retrocopy | DXXXFKNSNAPKKIPSGFFLFSSEYHPKMK-EHPGLSISDIAKKQGKM*NNTAADIKQPYEKKDANLKEK |
Parental | YEKDIAAYRAKGKPD |
Y.K.I.AY.AKGKPD | |
Retrocopy | YKKNITAYQAKGKPD |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP014902_placenta | 0 .00 RPM | 55 .35 RPM |
SRP014902_testis | 0 .00 RPM | 227 .30 RPM |
SRP018288_heart | 0 .00 RPM | 302 .56 RPM |
SRP018288_kidney | 0 .00 RPM | 329 .11 RPM |
SRP018288_liver | 0 .00 RPM | 231 .23 RPM |
SRP018288_lung | 0 .00 RPM | 355 .27 RPM |
SRP018856_adipose | 0 .00 RPM | 214 .38 RPM |
SRP035408_brain | 0 .00 RPM | 1105 .87 RPM |
SRP035408_liver | 0 .00 RPM | 695 .67 RPM |