RetrogeneDB ID: | retro_mmus_3106 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
Coordinates: | 8:14136369..14136807(+) | ||
Located in intron of: | ENSMUSG00000047495 | ||
Retrocopyinformation | Ensembl ID: | ENSMUSG00000085371 | |
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: | 96.58 % |
Parental protein coverage: | 67.91 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 0 |
Parental | HPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKGETKKKFKDPNAPKRPPS |
H.DASVNFSEFSKKCSERWKTMSAKEKGKF.DMAKAD.ARYEREMKTYIPPKGETKKKFKDPNAPKRPPS | |
Retrocopy | HLDASVNFSEFSKKCSERWKTMSAKEKGKFKDMAKADEARYEREMKTYIPPKGETKKKFKDPNAPKRPPS |
Parental | AFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRAKGKPDA |
AFFLFCSEYRPKIKGEHPGLSIG.VAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRAKGKPDA | |
Retrocopy | AFFLFCSEYRPKIKGEHPGLSIGGVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRAKGKPDA |
Parental | AKKGVV |
A.KGVV | |
Retrocopy | AEKGVV |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP007412_brain | 0 .05 RPM | 36 .52 RPM |
SRP007412_cerebellum | 0 .00 RPM | 25 .49 RPM |
SRP007412_heart | 0 .06 RPM | 35 .74 RPM |
SRP007412_kidney | 0 .06 RPM | 43 .37 RPM |
SRP007412_liver | 0 .00 RPM | 39 .30 RPM |
SRP007412_testis | 0 .05 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_140763 | 257 libraries | 258 libraries | 397 libraries | 147 libraries | 13 libraries |