RetrogeneDB ID: | retro_btau_329 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 10:8139929..8140247(+) | ||
| Located in intron of: | ENSBTAG00000034823 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MRPL23 | ||
| Ensembl ID: | ENSBTAG00000000103 | ||
| Aliases: | None | ||
| Description: | 39S ribosomal protein L23, mitochondrial [Source:RefSeq peptide;Acc:NP_001071352] |
Retrocopy-Parental alignment summary:
>retro_btau_329
ATGACCAGAGTGGACCTCAGGAACTACCTCGAGCGCGTCTACAATGTGCCGGTGGCCGCCGTGCGGACGAGGGTGCAGCA
CGGTTCCAACAGGAGGAGGGATCACAGGAACGTCAGGATAAAGCAGCCAGACTATAAGGTGGCCTACGTGCAGCTGGCAC
ACGGGCAGACCTTCACATTCCCAGATCTGTTTCCCAAGGGGAAGCGGCCCGGCGGCAGCTCCGCGGACGAGGACCTCCGG
GTCCAGGTGCTGGAGGAGCAGCAGCAACGTCAGAGCCCCGACCCGCGGCGCGGGGGCGTCCCCAGCTGGTTTGGCCTG
ORF - retro_btau_329 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 99.06 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MTRVDLRNYLERVYNVPVAAVRTRVQHGSNRRRDHRNVRIKQPDYKVAYVQLAHGQTFTFPDLFPKGKRP |
| MTRVDLRNYLERVYNVPVAAVRTRVQHGSNRRRDHRNVRIKQPDYKVAYVQLAHGQTFTFPDLFPKGKRP | |
| Retrocopy | MTRVDLRNYLERVYNVPVAAVRTRVQHGSNRRRDHRNVRIKQPDYKVAYVQLAHGQTFTFPDLFPKGKRP |
| Parental | GGSSADEDLRDQVLEEQQQRQSPDPRRGGVPSWFGL |
| GGSSADEDLR.QVLEEQQQRQSPDPRRGGVPSWFGL | |
| Retrocopy | GGSSADEDLRVQVLEEQQQRQSPDPRRGGVPSWFGL |
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 | 18 .31 RPM | 42 .18 RPM |
| ERP005899_muscle | 1 .37 RPM | 28 .88 RPM |
| SRP017611_brain | 0 .82 RPM | 2 .83 RPM |
| SRP017611_kidney | 3 .44 RPM | 50 .91 RPM |
| SRP017611_liver | 4 .98 RPM | 48 .02 RPM |
| SRP030211_testis | 1 .75 RPM | 10 .32 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_329 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_329 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_329 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 6 parental genes, and 6 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000000103 | 1 retrocopy |
retro_btau_329 ,
|
| Macaca mulatta | ENSMMUG00000031268 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000037772 | 1 retrocopy | |
| Nomascus leucogenys | ENSNLEG00000026950 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000029988 | 1 retrocopy | |
| Sarcophilus harrisii | ENSSHAG00000002716 | 1 retrocopy |