RetrogeneDB ID: | retro_btau_799 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 19:40395909..40396242(-) | ||
| Located in intron of: | ENSBTAG00000008371 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MRPL53 | ||
| Ensembl ID: | ENSBTAG00000016599 | ||
| Aliases: | None | ||
| Description: | 39S ribosomal protein L53, mitochondrial [Source:UniProtKB/Swiss-Prot;Acc:Q2HJF1] |
Retrocopy-Parental alignment summary:
>retro_btau_799
ATGGCGGCGGCCTTGGCTCGGCTCTGGCTCCGCTCGGTCAAGCAGGTTCGGGTTCAGTCTTGCCCCTTCCAGAAGAACGT
GGAATCGACAATTTCCTTCCTCCAGGCGGTGAGCAGCAATAAAGTTCGCTCCACGAACCTCAACTGCTCAGTGATTGCGG
ACGTGAGGCATGACAGCTCCGAGCCTTGCGTGGACGTGCTGTTCGGAGATGGGCATCGCTTGATTATGCGTGGCGCTCAC
CTGACCGCCCAGGAAGTGCTCACTGCTTTCGCCTCCCACATCCAGGCCAGGGGCGCGGCGGCGAGCAGGGACAAGCCTAG
CGCCAGTACCGGG
ORF - retro_btau_799 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 90.99 % |
| Parental protein coverage: | 99.11 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MAAALARLGLRSVKQVRVQFCPFEKNVESTRTFLQAVSSEKVRSTNLNCSVIADVRHDGSEPCVDVLFGD |
| MAAALARL.LRSVKQVRVQ.CPF.KNVEST..FLQAVSS.KVRSTNLNCSVIADVRHD.SEPCVDVLFGD | |
| Retrocopy | MAAALARLWLRSVKQVRVQSCPFQKNVESTISFLQAVSSNKVRSTNLNCSVIADVRHDSSEPCVDVLFGD |
| Parental | GHRLIMRGAHLTAQEMLSAFASHIQARGAAASGDKPSASTG |
| GHRLIMRGAHLTAQE.L.AFASHIQARGAAAS.DKPSASTG | |
| Retrocopy | GHRLIMRGAHLTAQEVLTAFASHIQARGAAASRDKPSASTG |
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 .14 RPM | 30 .21 RPM |
| ERP005899_muscle | 0 .21 RPM | 38 .80 RPM |
| SRP017611_brain | 0 .14 RPM | 23 .84 RPM |
| SRP017611_kidney | 0 .18 RPM | 37 .64 RPM |
| SRP017611_liver | 0 .00 RPM | 29 .30 RPM |
| SRP030211_testis | 0 .02 RPM | 38 .75 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_799 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_799 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_799 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 5 parental genes, and 8 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000016599 | 3 retrocopies |
retro_btau_1132, retro_btau_1528, retro_btau_799 ,
|
| Nomascus leucogenys | ENSNLEG00000000672 | 1 retrocopy | |
| Oryctolagus cuniculus | ENSOCUG00000015342 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000033835 | 1 retrocopy | |
| Tarsius syrichta | ENSTSYG00000002278 | 2 retrocopies |