RetrogeneDB ID: | retro_btau_225 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 16:27058046..27058913(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSBTAG00000044081 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | AUH | ||
| Ensembl ID: | ENSBTAG00000047649 | ||
| Aliases: | None | ||
| Description: | methylglutaconyl-CoA hydratase, mitochondrial [Source:RefSeq peptide;Acc:NP_001098906] |
Retrocopy-Parental alignment summary:
>retro_btau_225
ATGGCGGTGGCAGCTTCCGCGGCACCTGGGGCCTTGGGCACTTTGCAAGCCAGCCGTGCCCGCTTGGTGGCCGCTTGCTG
TACGCGGCTAGGCGCCAGGTGCAGGCTGCCCGGCTCCTGGACGTGCCCGCGGGTCGACTCGACATGGGCCCGGGGCTGGA
CGCCCGCGGCCGGGAAAGCAGCCTGGCAGAGGGGCTACAGCGCAGAGGTGAAGACTGAGGACGAGCTGCGGGTGTGGTAC
CTGGAGGAGGAAAACCGAGGAATTGTGGTGCTTGGAATAAACAGAGCCTATGCCAAAAATTCACTGAGTAAAAATCTTAT
AAAAATGCTTTCAAGAGCTGTGGATGCTTTAAAATCTGATAAGAAAGTACGGACCATAATAGTCAGAAATGAAGTCCCGG
GGATATTCTGTGCTGGTGCTGATCTTAAGGAAAGAGCCAAAATGAGTTCCAGTGAAGTTGGTCCTTTTGTCTCCAAAATA
AGAGCAATGATTAATGAAATTGGGGGAACACAGCGACTGCCACGTGCCATTGGGATGTCCCTGGGGAAAGAGCTCATCTT
CTCTGCACGTGTGCTTGATGGCCAAGAAGCCAAGTCAGTGGGCTTGATCAGCCATGTTCTAGAACAGAACCAGGAGGGGG
ATGCTGCCTACAGAAAGGCCTTGGACCTAGCAAGAGAGTTTTTACCTCAGGGACCTGTTGCAATGACAGTGGCAAAATTA
GCAATTAATCAAGGAATGGAGGTCGATTTAGTAACAGGATTAGCCATAGAAGAAGCATGTTATGCTCAGACCATTCCAAC
AAAAGACAGACTTGAAGGTCTTCTTGCTTTTAAAGAGAAAAGGACCCCTCACTATAAAGGAGAATAG
ORF - retro_btau_225 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 91.1 % |
| Parental protein coverage: | 90.68 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MAVAASAAPGALGTLQASRARLVAACCARLGPRWRLPGSWTCPRVDSTIWARGWTPAAGGAAWQRGYSAE |
| MAVAASAAPGALGTLQASRARLVAACC.RLG.R.RLPGSWTCPRVDST.WARGWTPAAG.AAWQRGYSAE | |
| Retrocopy | MAVAASAAPGALGTLQASRARLVAACCTRLGARCRLPGSWTCPRVDST-WARGWTPAAGKAAWQRGYSAE |
| Parental | VKTEDELRVRYLEEENRGIVVLGINRAYAKNSLSKNLIKMLSKAVDALKSDKKVRTIIVRSEVPGIFCAE |
| VKTEDELRV.YLEEENRGIVVLGINRAYAKNSLSKNLIKMLS.AVDALKSDKKVRTIIVR.EVPGIFCA. | |
| Retrocopy | VKTEDELRVWYLEEENRGIVVLGINRAYAKNSLSKNLIKMLSRAVDALKSDKKVRTIIVRNEVPGIFCAG |
| Parental | TYCKRR |
| ...K.R | |
| Retrocopy | ADLKER |
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 | 6 .56 RPM | 2 .02 RPM |
| ERP005899_muscle | 2 .01 RPM | 1 .48 RPM |
| SRP017611_brain | 4 .43 RPM | 5 .25 RPM |
| SRP017611_kidney | 8 .59 RPM | 8 .71 RPM |
| SRP017611_liver | 3 .55 RPM | 4 .15 RPM |
| SRP030211_testis | 1 .87 RPM | 3 .20 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_225 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_225 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_225 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000047649 | 1 retrocopy |
retro_btau_225 ,
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