RetrogeneDB ID: | retro_btau_1660 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 8:92969086..92969596(-) | ||
| Located in intron of: | ENSBTAG00000018445 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PPP3R1 | ||
| Ensembl ID: | ENSBTAG00000010619 | ||
| Aliases: | None | ||
| Description: | Calcineurin subunit B type 1 [Source:UniProtKB/Swiss-Prot;Acc:P63099] |
Retrocopy-Parental alignment summary:
>retro_btau_1660
ATGGGAAATGAGGCCAGTTACCCGGCGGAGATATGCTCGCACTTCGACGAAGATGAAATTAAAAGGCTGCGCAAGCGTTT
TAAGAAGCTGGACTTGGACAGTTCCAGCGCTCTGAGCGTCAAAGAGTTCACGTCCATGCCAGAGCTGCAGGAGAACCCGC
TGGTGCAGCGGGTGATAGACGTCTTCGACACCGACGGCGACGGACAGGTGGACTTCCGGGAATTCATCCTGGGGACCTCC
CAGTTCAGCGTCCGGGGAGATGAGGAGCAGAAGCTGAGGTTTGCTTTCAGCATCTACGACATGGACAAAGACGGCTACAT
TTCCAACGGGGAGCTCTTCCAGGTGCTGAAGATGATGGTAGGCGACAACCTGAAAGACTGGCAGTTACAGCAGCTGGTGG
ACAAAACCATCATCCTCCTGGACAAAGACGGGGACGGGAAAATCTCCTTCCAGGAATTCAGTGCTGTGGTCAGAAGCCTG
GAGATCCACAAGCACTTGGTGACCATTGTG
ORF - retro_btau_1660 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 79.41 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MGNEASYPLEMCSHFDADEIKRLGKRFKKLDLDNSGSLSVEEFMSLPELQQNPLVQRVIDIFDTDGNGEV |
| MGNEASYP.E.CSHFD.DEIKRL.KRFKKLDLD.S..LSV.EF.S.PELQ.NPLVQRVID.FDTDG.G.V | |
| Retrocopy | MGNEASYPAEICSHFDEDEIKRLRKRFKKLDLDSSSALSVKEFTSMPELQENPLVQRVIDVFDTDGDGQV |
| Parental | DFKEFIEGVSQFSVKGDKEQKLRFAFRIYDMDKDGYISNGELFQVLKMMVGNNLKDTQLQQIVDKTIINA |
| DF.EFI.G.SQFSV.GD.EQKLRFAF.IYDMDKDGYISNGELFQVLKMMVG.NLKD.QLQQ.VDKTII.. | |
| Retrocopy | DFREFILGTSQFSVRGDEEQKLRFAFSIYDMDKDGYISNGELFQVLKMMVGDNLKDWQLQQLVDKTIILL |
| Parental | DKDGDGRISFEEFCAVVGGLDIHKKMVVDV |
| DKDGDG.ISF.EF.AVV..L.IHK..V..V | |
| Retrocopy | DKDGDGKISFQEFSAVVRSLEIHKHLVTIV |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| ERP005899_liver | 0 .00 RPM | 4 .97 RPM |
| ERP005899_muscle | 0 .00 RPM | 21 .22 RPM |
| SRP017611_brain | 0 .00 RPM | 95 .93 RPM |
| SRP017611_kidney | 0 .00 RPM | 29 .81 RPM |
| SRP017611_liver | 0 .00 RPM | 19 .03 RPM |
| SRP030211_testis | 58 .38 RPM | 14 .57 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1660 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1660 was not experimentally validated.