RetrogeneDB ID: | retro_mmus_3641 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
Coordinates: | X:75475234..75475523(-) | ||
Located in intron of: | ENSMUSG00000083093 | ||
Retrocopyinformation | Ensembl ID: | ENSMUSG00000048709 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | Hmgn1 | ||
Ensembl ID: | ENSMUSG00000040681 | ||
Aliases: | None | ||
Description: | high mobility group nucleosomal binding domain 1 [Source:MGI Symbol;Acc:MGI:96120] |
Percent Identity: | 94.85 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 1 |
Parental | MPKRKVSADGAAKAEPKRRSARLSAKPAPAKVDAKP-KKAAGKDKASDKKVQIKGKRGAKGKQADVADQQ |
MPKRKVSADGAAKAEPK..SARLSAKPAPAKVDAKP.KKAAGKDKASDKKVQIKGKRGAK.KQADVADQ. | |
Retrocopy | MPKRKVSADGAAKAEPKCLSARLSAKPAPAKVDAKP>KKAAGKDKASDKKVQIKGKRGAKSKQADVADQE |
Parental | TTELPAENGETENQSPASEEEKEAKSD |
TTELPAENGETENQSPASEEEKEAKSD | |
Retrocopy | TTELPAENGETENQSPASEEEKEAKSD |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP007412_brain | 0 .02 RPM | 27 .59 RPM |
SRP007412_cerebellum | 0 .04 RPM | 26 .14 RPM |
SRP007412_heart | 0 .03 RPM | 21 .23 RPM |
SRP007412_kidney | 0 .04 RPM | 50 .01 RPM |
SRP007412_liver | 0 .08 RPM | 36 .43 RPM |
SRP007412_testis | 0 .09 RPM | 25 .52 RPM |
ENCODE library ID | Target | ChIP-Seq Peak coordinates |
---|---|---|
ENCFF001YIJ | POLR2A | X:75475280..75475808 |
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_158030 | 347 libraries | 477 libraries | 242 libraries | 5 libraries | 1 library |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Cavia porcellus | ENSCPOG00000002336 | 7 retrocopies | |
Monodelphis domestica | ENSMODG00000020972 | 5 retrocopies | |
Mus musculus | ENSMUSG00000040681 | 13 retrocopies | |
Rattus norvegicus | ENSRNOG00000048226 | 8 retrocopies | |
Rattus norvegicus | ENSRNOG00000050978 | 5 retrocopies |