RetrogeneDB ID: | retro_btau_841 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 2:124736339..124736760(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RER1 | ||
| Ensembl ID: | ENSBTAG00000009307 | ||
| Aliases: | None | ||
| Description: | Protein RER1 [Source:UniProtKB/Swiss-Prot;Acc:A5PJ65] |
Retrocopy-Parental alignment summary:
>retro_btau_841
TCCAAAAGTGACGGTGTGGGAGATTCTGTCCATGGGAGACCTTCTGTGGTCCACAGACTTGTCACTCGACTCGGACAGAT
CTACCAGTCCGGGCGAGACAATTCTGCGGCGCTCCAGGCCCAGCGATGAGTGGTGAAGCTAGACGAGAGCTTCCGCTACA
TGATCCGAGTTTATCTGCTGCAGGGTTGGGACATGGTCACCAACGCCTTGGGAGTCTATCATCTAAATCTCTTTCTAGCT
TTCCTTTCTCCAAAAGTGGATCCCTCCTTAATGGAAGATTCAGGCAGTGGCCCCTGCATTATCAACCAAATAGAACGAGG
GGTTCCAGCCCTTCATCCGTAGGCTCCCAGAGTTTAAGTTTTGGCACGCAGAGACCAAGGGCACCCTCATGGCCGTGGTC
CGCACCTTCTTTGAGGTGTTC
ORF - retro_btau_841 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.34 % |
| Parental protein coverage: | 71.43 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | SEGDSVGDSVHGKPSVVYRFFTRLGQIYQSWLDKSTPHTAVRWVVTLGLSFIYMIRVYLLQGWYIVTYAL |
| S..D.VGDSVHG.PSVV.R..TRLGQIYQS..D.S....A.R.VV.L..SF.YMIRVYLLQGW..VT.AL | |
| Retrocopy | SKSDGVGDSVHGRPSVVHRLVTRLGQIYQSGRDNSAALQAQR*VVKLDESFRYMIRVYLLQGWDMVTNAL |
| Parental | GIYHLNLFIAFLSPKVDPSLMEDSDDG-PSLPTKQNEEFRPFIRRLPEFKFWHAATKGILVAMVCTFFEA |
| G.YHLNLF.AFLSPKVDPSLMEDS..G.P.L.TK.NE.F.PFIRRLPEFKFWHA.TKG.L.A.V.TFFE. | |
| Retrocopy | GVYHLNLFLAFLSPKVDPSLMEDSGSG>PALSTK*NEGFQPFIRRLPEFKFWHAETKGTLMAVVRTFFEV |
| Parental | F |
| F | |
| Retrocopy | F |
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 | 51 .69 RPM |
| ERP005899_muscle | 0 .00 RPM | 114 .08 RPM |
| SRP017611_brain | 0 .00 RPM | 34 .90 RPM |
| SRP017611_kidney | 0 .00 RPM | 73 .08 RPM |
| SRP017611_liver | 0 .00 RPM | 98 .54 RPM |
| SRP030211_testis | 0 .05 RPM | 76 .07 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_841 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_841 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_841 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000009307 | 1 retrocopy |
retro_btau_841 ,
|
| Canis familiaris | ENSCAFG00000019395 | 1 retrocopy | |
| Macropus eugenii | ENSMEUG00000006273 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000001472 | 1 retrocopy |