RetrogeneDB ID: | retro_mmus_3260 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
Coordinates: | 9:31948346..31948937(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | Tpi1 | ||
Ensembl ID: | ENSMUSG00000023456 | ||
Aliases: | Tpi1, AI255506, Tpi, Tpi-1 | ||
Description: | triosephosphate isomerase 1 [Source:MGI Symbol;Acc:MGI:98797] |
Percent Identity: | 76.59 % |
Parental protein coverage: | 67.22 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 4 |
Parental | TDLQRLEPGTMAPTRKFFVGGNWKMNGRKKCLGELICTLNAANVPAGTEVVCAPPTAYIDFARQKLDPKI |
TDLQRLE..TMAP.RKFFVGGNWKMNGRK.CL.ELICT..AAN..A.TEVVCA.PT.YIDFA.QKLDPK. | |
Retrocopy | TDLQRLEISTMAPSRKFFVGGNWKMNGRKQCLEELICTPDAANLLADTEVVCARPTTYIDFASQKLDPKS |
Parental | AVAAQNCYKV-TNGAFTGEISPGMIKDLGATWVVLGHSE-RRHVFGESDELIGQKVSHALAEGLGVIACI |
.VA.QNCY.V.T.G...G..S......LGATWVVLGHSE.RRHVFGESDELIG.KV.HALAEGL.VIACI | |
Retrocopy | SVATQNCYNV>TVGPSLGK-SALALSELGATWVVLGHSE>RRHVFGESDELIGHKVNHALAEGLAVIACI |
Parental | G-EKLDEREAGITEKVVFEQTKVIADNVKDWSKVVL-AYEPVWAIGTGKTATPQQAQEVHEKLRG |
G.EKL.ERE..ITEK..FEQTKVIADNVK.WSKVVL.AY.PVWAIGT...ATPQQA.EVHEKL.G | |
Retrocopy | G<EKLGEREDDITEKAAFEQTKVIADNVKNWSKVVL<AYDPVWAIGT---ATPQQAREVHEKLWG |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP007412_brain | 0 .02 RPM | 308 .62 RPM |
SRP007412_cerebellum | 0 .00 RPM | 340 .64 RPM |
SRP007412_heart | 0 .00 RPM | 409 .52 RPM |
SRP007412_kidney | 0 .00 RPM | 450 .52 RPM |
SRP007412_liver | 0 .11 RPM | 259 .08 RPM |
SRP007412_testis | 0 .46 RPM | 293 .10 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_149206 | 306 libraries | 285 libraries | 378 libraries | 90 libraries | 13 libraries |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Callithrix jacchus | ENSCJAG00000007348 | 2 retrocopies | |
Homo sapiens | ENSG00000111669 | 3 retrocopies | |
Gorilla gorilla | ENSGGOG00000002623 | 1 retrocopy | |
Macropus eugenii | ENSMEUG00000006977 | 5 retrocopies | |
Myotis lucifugus | ENSMLUG00000024989 | 4 retrocopies | |
Macaca mulatta | ENSMMUG00000005194 | 2 retrocopies | |
Mustela putorius furo | ENSMPUG00000016774 | 1 retrocopy | |
Mus musculus | ENSMUSG00000023456 | 4 retrocopies | |
Nomascus leucogenys | ENSNLEG00000004821 | 2 retrocopies | |
Otolemur garnettii | ENSOGAG00000031254 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000004207 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000004595 | 4 retrocopies | |
Rattus norvegicus | ENSRNOG00000015290 | 1 retrocopy | |
Rattus norvegicus | ENSRNOG00000050669 | 2 retrocopies |