RetrogeneDB ID: | retro_mmus_2682 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
Coordinates: | 5:107381488..107382017(-) | ||
Located in intron of: | ENSMUSG00000029279 | ||
Retrocopyinformation | Ensembl ID: | ENSMUSG00000081798 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | Hmgb1 | ||
Ensembl ID: | ENSMUSG00000066551 | ||
Aliases: | Hmgb1, DEF, HMG-1, Hmg1, SBP-1, amphoterin, p30 | ||
Description: | high mobility group box 1 [Source:MGI Symbol;Acc:MGI:96113] |
Percent Identity: | 83.52 % |
Parental protein coverage: | 83.26 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 2 |
Parental | MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKAR |
MGKGDPKKPRGKMSSYAFFVQTC.EEHKK.HPDAS.NFSEFSKK.SERW.TMSAKEKGK.EDMAKADKA. | |
Retrocopy | MGKGDPKKPRGKMSSYAFFVQTCQEEHKK-HPDASDNFSEFSKKGSERWETMSAKEKGKCEDMAKADKAH |
Parental | YEREMKTYI-PP-KGETK-KKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTA |
YEREMKTYI.PP..GETK.K....P.........FFLFCSEYRP.IKGEHPGLSIGDVAKKLGEMWNNTA | |
Retrocopy | YEREMKTYI<PPHNGETK<KEVQGPQCTQE--ASFFLFCSEYRPQIKGEHPGLSIGDVAKKLGEMWNNTA |
Parental | ADDKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAAKKGVVKAE |
ADDKQP.EKKAAKLKEK.EKDIAA.R.KGKPDAA.KGVVKAE | |
Retrocopy | ADDKQPCEKKAAKLKEKCEKDIAACRVKGKPDAAEKGVVKAE |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP007412_brain | 0 .28 RPM | 36 .52 RPM |
SRP007412_cerebellum | 0 .39 RPM | 25 .49 RPM |
SRP007412_heart | 0 .12 RPM | 35 .74 RPM |
SRP007412_kidney | 0 .08 RPM | 43 .37 RPM |
SRP007412_liver | 0 .00 RPM | 39 .30 RPM |
SRP007412_testis | 0 .41 RPM | 12 .44 RPM |