RetrogeneDB ID: | retro_mmus_1987 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
Coordinates: | 2:151458955..151460306(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSMUSG00000082809 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | Tuba1b | ||
Ensembl ID: | ENSMUSG00000023004 | ||
Aliases: | Tuba1b, Tuba2 | ||
Description: | tubulin, alpha 1B [Source:MGI Symbol;Acc:MGI:107804] |
Percent Identity: | 97.57 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 2 |
Parental | MRECISIHVGQAGVQIGNACWELYCLEHGIQPDGQMPSDKTIGGGDDSFNTFFSETGAGKHVPRAVFVDL |
MRECISIHVGQ.GVQIGNACWELYCLEHGIQPDGQMPSDKTIGGGDDSFNTFFSETGAGKHVPRAVFVDL | |
Retrocopy | MRECISIHVGQTGVQIGNACWELYCLEHGIQPDGQMPSDKTIGGGDDSFNTFFSETGAGKHVPRAVFVDL |
Parental | EPTVIDEVRTGTYRQLFHPEQLITGKEDAANNYARGHYTIGKEIIDLVLDRIRKLADQCTGLQGFLVFHS |
EPTVIDEVRTGTYRQLFHPEQLITGKEDAANNYARGHYTIGKEIIDLVLDRIRKLADQCTGLQGFLVFHS | |
Retrocopy | EPTVIDEVRTGTYRQLFHPEQLITGKEDAANNYARGHYTIGKEIIDLVLDRIRKLADQCTGLQGFLVFHS |
Parental | FGGG-TGSGFTSLLMERLSVDYGKKSKLEFSIYPAP-QVSTAVVEPYNSILTTHTTLEHSDCAFMVDNEA |
FGG..TGSGFTSLLMERLSVDYGKKSKLEFSIYP.P.QVSTAVV.PYNSILTTHTTLEHSDCAFMVDNEA | |
Retrocopy | FGGE<TGSGFTSLLMERLSVDYGKKSKLEFSIYPGP<QVSTAVVDPYNSILTTHTTLEHSDCAFMVDNEA |
Parental | IYDICRRNLDIERPTYTNLNRLISQIVSSITASLRFDGALNVDLTEFQTNLVPYPRIHFPLATYAPVISA |
IYDICRRNLDIERPTYTNLNRLISQIVSSITASLRFDGALNVDLTEFQTNLVPYPRIHFPLATYAPVISA | |
Retrocopy | IYDICRRNLDIERPTYTNLNRLISQIVSSITASLRFDGALNVDLTEFQTNLVPYPRIHFPLATYAPVISA |
Parental | EKAYHEQLSVAEITNACFEPANQMVKCDPRHGKYMACCLLYRGDVVPKDVNAAIATIKTKRSIQFVDWCP |
EKAYHEQLSVAEITNACFEPANQMVKCDPRHGKYMACCLLYRGDVVPKDVNAAIATIKTKRSIQFVDWCP | |
Retrocopy | EKAYHEQLSVAEITNACFEPANQMVKCDPRHGKYMACCLLYRGDVVPKDVNAAIATIKTKRSIQFVDWCP |
Parental | TGFKVGINYQPPTVVPGGDLAKVQRAVCMLSNTTAIAEAWARLDHKFDLMYAKRAFVHWYVGEGMEEGEF |
TGFKVGINYQPPTVVPGGDLAKVQRAVCMLSNTTA.AEAWARLDHKFDLMYAKRAFVHWYVGEGMEEGEF | |
Retrocopy | TGFKVGINYQPPTVVPGGDLAKVQRAVCMLSNTTATAEAWARLDHKFDLMYAKRAFVHWYVGEGMEEGEF |
Parental | SEAREDMAALEKDYEEVGVDSVEGEGEEEGEEY |
SEAREDM.ALEKDYEEVGVDSVEG.GEE..EEY | |
Retrocopy | SEAREDMTALEKDYEEVGVDSVEGKGEEKEEEY |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP007412_brain | 0 .23 RPM | 77 .45 RPM |
SRP007412_cerebellum | 0 .17 RPM | 63 .92 RPM |
SRP007412_heart | 0 .22 RPM | 36 .14 RPM |
SRP007412_kidney | 0 .04 RPM | 16 .90 RPM |
SRP007412_liver | 0 .05 RPM | 8 .82 RPM |
SRP007412_testis | 4 .12 RPM | 8 .14 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_81440 | 77 libraries | 100 libraries | 526 libraries | 253 libraries | 116 libraries |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Bos taurus | ENSBTAG00000012244 | 1 retrocopy | |
Choloepus hoffmanni | ENSCHOG00000008444 | 2 retrocopies | |
Callithrix jacchus | ENSCJAG00000020874 | 2 retrocopies | |
Felis catus | ENSFCAG00000028689 | 3 retrocopies | |
Homo sapiens | ENSG00000123416 | 1 retrocopy | |
Macropus eugenii | ENSMEUG00000010779 | 2 retrocopies | |
Macropus eugenii | ENSMEUG00000011167 | 4 retrocopies | |
Monodelphis domestica | ENSMODG00000015206 | 2 retrocopies | |
Mus musculus | ENSMUSG00000023004 | 6 retrocopies |
retro_mmus_1562, retro_mmus_1607, retro_mmus_1742, retro_mmus_1987 , retro_mmus_3297, retro_mmus_3327,
|
Mus musculus | ENSMUSG00000043091 | 1 retrocopy | |
Mus musculus | ENSMUSG00000067338 | 1 retrocopy | |
Otolemur garnettii | ENSOGAG00000009435 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000012950 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000000190 | 2 retrocopies |