RetrogeneDB ID: | retro_mmus_3199 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
Coordinates: | 8:48070113..48070628(-) | ||
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: | 86.29 % |
Parental protein coverage: | 80.93 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 1 |
Parental | MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKAR |
MGKGDPKK.R.KMSSYAFFVQTC.EEHKKKHPDASVNFSEFSKKCSERW.T..AKEKG.FEDMAK.DKAR | |
Retrocopy | MGKGDPKKLRDKMSSYAFFVQTCQEEHKKKHPDASVNFSEFSKKCSERWETVPAKEKGIFEDMAKVDKAR |
Parental | YEREMKTYIPPKGETKKKFKDPNAPKRPPSAFFLFCSEYRPKIK-GEHPGLSIGDVAKKLGEMWNNTAAD |
YEREMKTYI.PKGETKKKFKDPNAPKRPPS..........PK.K.GEHPGLS.GDVAK.LGEMWNNTAAD | |
Retrocopy | YEREMKTYIRPKGETKKKFKDPNAPKRPPSSCSVLST--APKSK<GEHPGLSFGDVAKNLGEMWNNTAAD |
Parental | DKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAAKKG |
DKQPYEKKAAKLKEKYEKDI.AYRAKGKPDAAKKG | |
Retrocopy | DKQPYEKKAAKLKEKYEKDITAYRAKGKPDAAKKG |
* | 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 .00 RPM | 35 .74 RPM |
SRP007412_kidney | 0 .00 RPM | 43 .37 RPM |
SRP007412_liver | 0 .05 RPM | 39 .30 RPM |
SRP007412_testis | 0 .00 RPM | 12 .44 RPM |
TSS No. | TSS Name | TSS expression level (Expr) in TPM range: | ||||
---|---|---|---|---|---|---|
no expression | 0 < Expr ≤ 1 | 1 < Expr ≤ 5 | 5 < Expr ≤ 10 | Expr > 10 | ||
TSS #1 | TSS_142684 | 667 libraries | 383 libraries | 22 libraries | 0 libraries | 0 libraries |