RetrogeneDB ID: | retro_btau_197 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | X:32020737..32021265(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSBTAG00000018311 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TSR2 | ||
| Ensembl ID: | ENSBTAG00000015858 | ||
| Aliases: | None | ||
| Description: | Pre-rRNA-processing protein TSR2 homolog [Source:UniProtKB/Swiss-Prot;Acc:Q3T090] |
Retrocopy-Parental alignment summary:
>retro_btau_197
CTCTTAGGGACTGCGGTCTGCACATCGCTGGAGGCCTGGCCCACCTTGCAGATCGCTGTGGAGAATGGCTTTGTGCACAG
CTGGGAGAAGGCTGAATGGCTGGGGAGTGCAGTGGAGGAGTACTTCTTCCACAATGCTGACTTGGAGCTAGATGAGGTGA
AGGACTTCCTCAGGGAGCTAATGAAAAATGAGTTTAATACAGTTGTGGGGGGTGGGAGTCTGCCCCAGGTGAGTCAGCAG
CTACAGACCATGTTCCACCACTTCCAGAGGAGTGATAGGGCTGCTCTGAAGGTGATGGCCTCTCTCATCACGCAAAGAAA
GTGTAAGGTCAGAGTCAATGGACTGACTACAGCCAGAGAGACTGATGAGGATGATGGTGCAAATAGCATGAAGGAGATGG
AGATTGCAGCTATGAAATATGGGGCAGCTACAGATGGGATCTGCCCACAGCCTGAACACTTTGGTCCAGACTCCCAGACT
ATTAAGGAAGAGGATAAAGTGGAGGATGGCCAGACCAGAGAAAGAAAT
ORF - retro_btau_197 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 78.16 % |
| Parental protein coverage: | 91.58 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LFGAAVRAALEAWPALQIAVENGFGGVYSQEKAEWLGGAVEEYFFRNADLELDEVEDFLGELMMNEFDTV |
| L.G.AV...LEAWP.LQIAVENGF..V.S.EKAEWLG.AVEEYFF.NADLELDEV.DFL.ELM.NEF.TV | |
| Retrocopy | LLGTAVCTSLEAWPTLQIAVENGF--VHSWEKAEWLGSAVEEYFFHNADLELDEVKDFLRELMKNEFNTV |
| Parental | VEDGSLPQVSQQLQTMFHHFQKGDRAALKEMASLITQRKCKVRATALPTAGETDEDDDANSVEEMEVAAT |
| V..GSLPQVSQQLQTMFHHFQ..DRAALK.MASLITQRKCKVR...L.TA.ETDEDD.ANS..EME.AA. | |
| Retrocopy | VGGGSLPQVSQQLQTMFHHFQRSDRAALKVMASLITQRKCKVRVNGLTTARETDEDDGANSMKEMEIAAM |
| Parental | NDGAATDGVCPQPEPSGPDSQTIKEEDIVEDGWT |
| ..GAATDG.CPQPE..GPDSQTIKEED.VEDG.T | |
| Retrocopy | KYGAATDGICPQPEHFGPDSQTIKEEDKVEDGQT |
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 | 13 .63 RPM |
| ERP005899_muscle | 0 .00 RPM | 16 .00 RPM |
| SRP017611_brain | 0 .00 RPM | 29 .14 RPM |
| SRP017611_kidney | 0 .00 RPM | 59 .39 RPM |
| SRP017611_liver | 0 .00 RPM | 11 .25 RPM |
| SRP030211_testis | 0 .00 RPM | 14 .21 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_197 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_197 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_197 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000015858 | 1 retrocopy |
retro_btau_197 ,
|
| Macaca mulatta | ENSMMUG00000012612 | 1 retrocopy |