RetrogeneDB ID: | retro_sscr_304 | ||
Retrocopylocation | Organism: | Pig (Sus scrofa) | |
Coordinates: | 12:38214951..38215354(-) | ||
Located in intron of: | None | ||
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: | 61.7 % |
Parental protein coverage: | 64.19 % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 3 |
Parental | MGKGDPKKPRGKMSSYAFFVQT-CREEHKKKHPDASVNFSEFSKKCSE-RWKTMSAKEKGKFEDMAKADK |
M.KGDPKK.RGKMSS..........EEHKKKHP...V.F.E...K.SE...KTMS.K.KGKFE..AKAD. | |
Retrocopy | MDKGDPKKLRGKMSSHMHSLRS>LTEEHKKKHP--GVSFLELPEKGSE>AGKTMSDKGKGKFEELAKADN |
Parental | ARYEREMKTYIPPKG-ETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTA |
A..E..MKT....KG.ETKKKFKDPN..KR.P.A.FLFC.EY.P.IKGEH.GLS.G..AKKLGEM....A | |
Retrocopy | AHCEKDMKTLL--KG<ETKKKFKDPNVLKRLPLALFLFCPEYHPEIKGEHLGLSMGGAAKKLGEM*KKPA |
Parental | A |
A | |
Retrocopy | A |
* | 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 .31 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 |