RetrogeneDB ID: | retro_btau_1839 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | X:93053888..93054152(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MRPL52 | ||
| Ensembl ID: | ENSBTAG00000014822 | ||
| Aliases: | None | ||
| Description: | 39S ribosomal protein L52, mitochondrial [Source:UniProtKB/Swiss-Prot;Acc:P0C2B7] |
Retrocopy-Parental alignment summary:
>retro_btau_1839
GTCGCTGCCAGCCCCTCTGGCTACCAGCCCTTTACGGAGCTCCCAGACTGATCTTAGGCAGATGGCCGCCCTTCTCCTCC
AGTGAAAGGCCAGCTTTGAAGACAAACTCAAAGGGAAAAGTTTGCAAGATGAGTTGTACTGCTGTCACAGGAAATGGATG
CTGGATTACAGGCATGGCAGCTCAGGCAGCAGGGGAAGTTGCAGAAAGAAGACAGGAAACAGCAGAATGCTCTTAAACCC
AAAGCATCTCTACTGCAGAACCCA
ORF - retro_btau_1839 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.68 % |
| Parental protein coverage: | 70.97 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LAANPSGYGPLTELPDWSYADGRPAPPMKGQLRRKAQREKFARRVVLLSQEMDAGLQAWQLRQQEKLQEE |
| .AA.PSGY.P.TELPD.S.ADGRP.PP.KGQL.R..QREKFAR.VVLLSQEMDAGLQAWQLRQQ.KLQ.E | |
| Retrocopy | VAASPSGYQPFTELPD*S*ADGRPSPPVKGQL*RQTQREKFAR*VVLLSQEMDAGLQAWQLRQQGKLQKE |
| Parental | KRKQQNALKPKGVLLQNP |
| .RKQQNALKPK..LLQNP | |
| Retrocopy | DRKQQNALKPKASLLQNP |
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 | 10 .67 RPM |
| ERP005899_muscle | 0 .00 RPM | 25 .07 RPM |
| SRP017611_brain | 0 .00 RPM | 9 .14 RPM |
| SRP017611_kidney | 0 .00 RPM | 23 .06 RPM |
| SRP017611_liver | 0 .00 RPM | 13 .74 RPM |
| SRP030211_testis | 0 .00 RPM | 20 .29 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1839 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1839 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1839 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 | |
|---|---|---|---|
| Ailuropoda melanoleuca | ENSAMEG00000007264 | 1 retrocopy | |
| Bos taurus | ENSBTAG00000014822 | 1 retrocopy |
retro_btau_1839 ,
|
| Felis catus | ENSFCAG00000006625 | 1 retrocopy | |
| Tupaia belangeri | ENSTBEG00000000986 | 1 retrocopy |