RetrogeneDB ID: | retro_mmus_2015 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
Coordinates: | 2:21442989..21443529(-) | ||
Located in intron of: | ENSMUSG00000045967 | ||
Retrocopyinformation | Ensembl ID: | ENSMUSG00000080846 | |
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: | 87.98 % |
Parental protein coverage: | 84.19 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 2 |
Parental | MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCS-ERWKTMSAKEKGKFEDMAKADKA |
.GKGDPKK.RGKMSS..FFVQTCREEHKKKHPDASVNFSEFSKKC..ERWKTMSAKEKGKFEDMAKADKA | |
Retrocopy | VGKGDPKKLRGKMSSNTFFVQTCREEHKKKHPDASVNFSEFSKKCQ<ERWKTMSAKEKGKFEDMAKADKA |
Parental | RYEREMKTYI-PPKGETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAA |
RYEREMKTY...PKGETKKKFKDPNAPKRPPSAFF.FCSEY.PKIKGEHP.LSIGDVAKKLGEMW.N.AA | |
Retrocopy | RYEREMKTYT>TPKGETKKKFKDPNAPKRPPSAFFFFCSEYHPKIKGEHPVLSIGDVAKKLGEMWKNIAA |
Parental | DDKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAAKKGVVKAEKS |
DDKQPYEKKAAKLK.KY.KDI.AYRA..KPDAAKKGVV..EK. | |
Retrocopy | DDKQPYEKKAAKLK-KYKKDITAYRAEVKPDAAKKGVVMTEKN |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP007412_brain | 0 .07 RPM | 36 .52 RPM |
SRP007412_cerebellum | 0 .09 RPM | 25 .49 RPM |
SRP007412_heart | 0 .00 RPM | 35 .74 RPM |
SRP007412_kidney | 0 .02 RPM | 43 .37 RPM |
SRP007412_liver | 0 .03 RPM | 39 .30 RPM |
SRP007412_testis | 0 .00 RPM | 12 .44 RPM |