RetrogeneDB ID: | retro_mmus_2324 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
Coordinates: | 4:11144709..11145249(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSMUSG00000081490 | |
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: | 82.7 % |
Parental protein coverage: | 84.65 % |
Number of stop codons detected: | 2 |
Number of frameshifts detected | 3 |
Parental | GKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKE-KGKFEDMAKADKAR |
GK.DPKKPRGKMSSYAFFVQTC.EEHKK...DASVNFSEF.KK.SERWKTMSAKE.KGKFEDMAKADKAR | |
Retrocopy | GKRDPKKPRGKMSSYAFFVQTCQEEHKKQQLDASVNFSEFFKKFSERWKTMSAKE<KGKFEDMAKADKAR |
Parental | YEREMKTYIPPKGETKKKFKDPNAPKRP-PSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAAD |
YEREM.TYIP..G...K....PNA.KRP..SAFFL.CSEYRPKIKGEHPGLSIGDVAKKLGE.WNNTAAD | |
Retrocopy | YEREMQTYIPQRG-GQKEVQGPNALKRP<SSAFFL*CSEYRPKIKGEHPGLSIGDVAKKLGEIWNNTAAD |
Parental | DKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAAK-KGVVKAEKSKK |
.K.P.EKKAA..KEKYEKDIAAYRAKGKPDA.K.KG..KAEKSKK | |
Retrocopy | YK*PCEKKAAEWKEKYEKDIAAYRAKGKPDAVK<KGLFKAEKSKK |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP007412_brain | 0 .00 RPM | 36 .52 RPM |
SRP007412_cerebellum | 0 .00 RPM | 25 .49 RPM |
SRP007412_heart | 0 .03 RPM | 35 .74 RPM |
SRP007412_kidney | 0 .04 RPM | 43 .37 RPM |
SRP007412_liver | 0 .00 RPM | 39 .30 RPM |
SRP007412_testis | 0 .05 RPM | 12 .44 RPM |