RetrogeneDB ID: | retro_mmus_599 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
Coordinates: | 10:111500787..111501360(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
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: | 73.74 % |
Parental protein coverage: | 89.77 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 2 |
Parental | KGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYE |
K.DPKKP.GKMSS..FF.QTC.EEHKK.HPDASVN.SE.SKKCSERWKTM.AKEKGKFEDMAKADKARYE | |
Retrocopy | KVDPKKPKGKMSSCVFFMQTCQEEHKK-HPDASVN-SESSKKCSERWKTMFAKEKGKFEDMAKADKARYE |
Parental | REMKTYI---PPKGETKKKFKDPNAPKRPPSAFFLFCSEYRPKIK-GEHPGLSIGDVAKKLGEMWNNTAA |
REMK.YI....PKG.TKK....P.A.KRP.....L......PK.K.G.HPGLSIGDVAK.LGEMWNNTA. | |
Retrocopy | REMKNYISLPSPKGVTKKEVQGPSASKRPSPCSVLSTA---PKSK<GQHPGLSIGDVAKTLGEMWNNTAV |
Parental | DDKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAAKKGVVKAEKSK-KKKEEEDDEEDEE |
D.KQP..KKAAK.KEKYEKDIAAYRAKGKPDAAKKGVVKAEKSK.KK..E.D...... | |
Retrocopy | DNKQPHKKKAAKQKEKYEKDIAAYRAKGKPDAAKKGVVKAEKSK>KKEGEKDEQDKDD |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP007412_brain | 0 .68 RPM | 36 .52 RPM |
SRP007412_cerebellum | 0 .65 RPM | 25 .49 RPM |
SRP007412_heart | 0 .09 RPM | 35 .74 RPM |
SRP007412_kidney | 0 .17 RPM | 43 .37 RPM |
SRP007412_liver | 0 .03 RPM | 39 .30 RPM |
SRP007412_testis | 0 .05 RPM | 12 .44 RPM |
ENCODE library ID | Target | ChIP-Seq Peak coordinates |
---|---|---|
ENCFF001YIJ | POLR2A | 10:111496982..111501132 |
ENCFF001YKA | POLR2A | 10:111493504..111501227 |