RetrogeneDB ID: | retro_mmus_2588 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
Coordinates: | 5:95974239..95975623(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | Odc1 | ||
Ensembl ID: | ENSMUSG00000011179 | ||
Aliases: | Odc1, ODC | ||
Description: | ornithine decarboxylase, structural 1 [Source:MGI Symbol;Acc:MGI:97402] |
Percent Identity: | 92.64 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 1 |
Parental | MSSFTKDEFDCHILDEGFTAKDILDQK-INEVSSSDDKDAFYVADLGDILKKHLRWLKALPRVTPFYAVK |
MS.FTKDEFDCHILDEGFTAKDIL.QK.INEVSSSDDKDAFYVADLGDILKKHLRWLKALPRVTP.YAVK | |
Retrocopy | MSNFTKDEFDCHILDEGFTAKDILEQK>INEVSSSDDKDAFYVADLGDILKKHLRWLKALPRVTPVYAVK |
Parental | CNDSRAIVSTLAAIGTGFDCASKTEIQLVQGLGVPAERVIYANPCKQVSQIKYAASNGVQMMTFDSEIEL |
CNDSRAIVSTLAA.G.GFDCASKTEIQLVQG.GVP.E..IYANPCKQVSQIKYAAS.GVQMMTFDSEIEL | |
Retrocopy | CNDSRAIVSTLAAFGIGFDCASKTEIQLVQGPGVPPETIIYANPCKQVSQIKYAASSGVQMMTFDSEIEL |
Parental | MKVARAHPKAKLVLRIATDDSKAVCRLSVKFGATLKTSRLLLERAKELNIDVIGVSFHVGSGCTDPETFV |
MKVARAHPKAKLVLRIATDDSKAVCRLSVKFGATLKTSRLLLERAKELNIDVIGVSFHVGSGCTDPETFV | |
Retrocopy | MKVARAHPKAKLVLRIATDDSKAVCRLSVKFGATLKTSRLLLERAKELNIDVIGVSFHVGSGCTDPETFV |
Parental | QAVSDARCVFDMATEVGFSMHLLDIGGGFPGSEDTKLKFEEITSVINPALDKYFPSDSGVRIIAEPGRYY |
QAVSDARCVFDMATEVGFSMHLLDIGGGFPGSEDTKLKFEEITSVI.PALDKYFPSDSGVRIIAEPG... | |
Retrocopy | QAVSDARCVFDMATEVGFSMHLLDIGGGFPGSEDTKLKFEEITSVIKPALDKYFPSDSGVRIIAEPGSFH |
Parental | VASAFTLAVNIIAKKTVWKEQPGSDDEDESNEQTFMYYVNDGVYGSFNCILYDHAHVKALLQKRPKPDEK |
..S.............V.KEQP.SDD.DESNEQTFMYYVNDGVYGSFNCILYDHAHVKALLQKRPKPDEK | |
Retrocopy | ACSQHHCXXXXXXXXXV*KEQPSSDDDDESNEQTFMYYVNDGVYGSFNCILYDHAHVKALLQKRPKPDEK |
Parental | YYSSSIWGPTCDGLDRIVERCNLPEMHVGDWMLFENMGAYTVAAASTFNGFQRPNIYYVMSRPMWQLMKQ |
YYSSSIWGPTCDGLDRI.ERCNLPEMHVGDWMLFENMGAYTVAAASTFNGFQRPNIYYVMSRPMWQLMKQ | |
Retrocopy | YYSSSIWGPTCDGLDRILERCNLPEMHVGDWMLFENMGAYTVAAASTFNGFQRPNIYYVMSRPMWQLMKQ |
Parental | IQSHGFPPEVEEQDDGTLPMSCAQESGMDRHPAACASARINV |
IQSHGFPPEVEEQDDGTLPMSCAQESGMDRHPAACASARINV | |
Retrocopy | IQSHGFPPEVEEQDDGTLPMSCAQESGMDRHPAACASARINV |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP007412_brain | 0 .00 RPM | 36 .54 RPM |
SRP007412_cerebellum | 0 .04 RPM | 43 .94 RPM |
SRP007412_heart | 0 .12 RPM | 40 .72 RPM |
SRP007412_kidney | 0 .42 RPM | 253 .38 RPM |
SRP007412_liver | 0 .05 RPM | 51 .94 RPM |
SRP007412_testis | 0 .50 RPM | 221 .74 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_116676 | 560 libraries | 289 libraries | 195 libraries | 21 libraries | 7 libraries |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Ailuropoda melanoleuca | ENSAMEG00000011415 | 1 retrocopy | |
Bos taurus | ENSBTAG00000004256 | 1 retrocopy | |
Dasypus novemcinctus | ENSDNOG00000018474 | 31 retrocopies |
retro_dnov_1032, retro_dnov_1128, retro_dnov_1129, retro_dnov_1137, retro_dnov_1212, retro_dnov_1235, retro_dnov_1418, retro_dnov_1434, retro_dnov_1493, retro_dnov_1594, retro_dnov_1595, retro_dnov_1677, retro_dnov_1778, retro_dnov_1810, retro_dnov_1813, retro_dnov_2016, retro_dnov_2027, retro_dnov_2108, retro_dnov_2147, retro_dnov_2180, retro_dnov_2212, retro_dnov_2461, retro_dnov_2551, retro_dnov_2564, retro_dnov_392, retro_dnov_740, retro_dnov_766, retro_dnov_781, retro_dnov_923, retro_dnov_943, retro_dnov_958,
|
Myotis lucifugus | ENSMLUG00000010423 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000020441 | 2 retrocopies | |
Monodelphis domestica | ENSMODG00000014779 | 1 retrocopy | |
Mus musculus | ENSMUSG00000011179 | 12 retrocopies | |
Ictidomys tridecemlineatus | ENSSTOG00000000386 | 2 retrocopies |