RetrogeneDB ID: | retro_mmus_785 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
Coordinates: | 11:46243654..46244194(-) | ||
Located in intron of: | ENSMUSG00000020340 | ||
Retrocopyinformation | Ensembl ID: | ENSMUSG00000081078 | |
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: | 92.78 % |
Parental protein coverage: | 83.26 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 0 |
Parental | MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKAR |
MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGK.EDMAKADKAR | |
Retrocopy | MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKCEDMAKADKAR |
Parental | YEREMKTYIPPKGE-TKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAAD |
YEREMKTY.....E.TKKKFKDPNAPKRPPSAFFLFCSEY.PKIKGEHPGL..GDVAKKLGE.WNNTA.D | |
Retrocopy | YEREMKTYXXXXXEETKKKFKDPNAPKRPPSAFFLFCSEYHPKIKGEHPGLCVGDVAKKLGELWNNTAGD |
Parental | DKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAAKKGVVKAE |
DKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAAK.GVVKAE | |
Retrocopy | DKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAAKEGVVKAE |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP007412_brain | 0 .02 RPM | 36 .52 RPM |
SRP007412_cerebellum | 0 .13 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 |
ENCODE library ID | Target | ChIP-Seq Peak coordinates |
---|---|---|
ENCFF001YIJ | POLR2A | 11:46244839..46246785 |