RetrogeneDB ID: | retro_btau_1824 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | X:77023091..77023546(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MCEE | ||
| Ensembl ID: | ENSBTAG00000035247 | ||
| Aliases: | None | ||
| Description: | Methylmalonyl-CoA epimerase, mitochondrial [Source:UniProtKB/Swiss-Prot;Acc:Q2KIZ3] |
Retrocopy-Parental alignment summary:
>retro_btau_1824
GCATGCATAATGAAGGTGGCTTCAAGTGCTTAGGGCCTTTCCTCAGACTTTAGACTTCAGTTCCAACAGTTAGAACTTCT
TCCACATTGCTGTCCTCGCATCAAGGGGCTGCCCTTATATGGAACCTGAGTCAACTCAATCATGTTGCAGTTTCAGTGCC
AGACTTGTGAAAGGCCAGGTAATTTTATTAGAATGTTCTGGGGCCCAAAGTGGGTGAGCTGGTCCCTTTACCTGAGTATG
GAGTATCTGTCTTTTTTGTCAACCTGGGAAATACCAAGGTGGATCTGCGTCACCCACAGAGAAGCAACAATTCAATTGCA
GGTCTTCTGAATAAAAGCTAGACTGGAGTGGTGCACCCCATCTGCATTGAGGTGGATAATATAAATGCAACTGTGATGGA
TTTGAAAGAAAAGAAGATTCATAATCTAAGTGAAGAGGCCAAAATAGGAGCACAT
ORF - retro_btau_1824 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 67.53 % |
| Parental protein coverage: | 86.86 % |
| Number of stop codons detected: | 6 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | ARVLKVAAASAAGL-FPRLRTPVSTVRTSASL-SSHPGAGPVWNLGRLNHVAVAVPDLEKARAFYKNVLG |
| A...KVA..SA.GL.F.RL.T.V.TVRTS..L.SSH.GA...WNL..LNHVAV.VPDL.KAR.FY.NVLG | |
| Retrocopy | ACIMKVAS-SA*GL<FLRL*TSVPTVRTSSTLLSSHQGAALIWNLSQLNHVAVSVPDL*KAR*FY*NVLG |
| Parental | AEVGEPVPLPEHGVSVVFVNLGNTKMELLHPLGSDSPIAGFLKKNKAGGMHHVCIEVDNINVAVMDLKEK |
| ..VGE.VPLPE.GVSV.FVNLGNTK..L.HP..S...IAG.L.K...G..H..CIEVDNIN..VMDLKEK | |
| Retrocopy | PKVGELVPLPEYGVSVFFVNLGNTKVDLRHPQRSNNSIAGLLNKS*TGVVHPICIEVDNINATVMDLKEK |
| Parental | KIRILSEEAKIGAH |
| KI..LSEEAKIGAH | |
| Retrocopy | KIHNLSEEAKIGAH |
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 | 30 .93 RPM |
| ERP005899_muscle | 0 .00 RPM | 22 .86 RPM |
| SRP017611_brain | 0 .00 RPM | 4 .39 RPM |
| SRP017611_kidney | 0 .00 RPM | 27 .62 RPM |
| SRP017611_liver | 0 .00 RPM | 22 .12 RPM |
| SRP030211_testis | 0 .00 RPM | 3 .27 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1824 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1824 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1824 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 | ENSBTAG00000035247 | 1 retrocopy |
retro_btau_1824 ,
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