RetrogeneDB ID: | retro_btau_79 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 11:47884973..47885885(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSBTAG00000002545 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TBPL2 | ||
| Ensembl ID: | ENSBTAG00000018277 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_btau_79
ATGGATCGGAATGATAGCCTCTCTCCGTTTGACCAGTATCTGGCCTCCCCTCAAGGTGCCATGAGTCCTGGAATCCCTGT
CTTCAGTCCAGTGATGCATTATGGCACAGGACTGACTCCGCAGCCAATTCAGAGCACCGACAGTCTGTCTACTTCAGAGG
AGGAGCAGCAGCAGCAGACGACGGTGAGAACAGGTCGGCTTTCGACGACATCCCAGGAGGCAACCCAGGAGGCCTTGGAC
CAGACACCACAGCTCTTCGACTCACAGCCTCTTACGACCGCACCCTTGCTGGGTACCACTCCCCTGTATCCATCCCCCAT
GACCCCCATGATCCCCATGACCCCTGCCATGCCAGCCTCAGAGATCGCTGAGTTGGTGCCACAGCTGCACAATGTTGTAT
GCACAGTGAATCTTGGTTGTAAACTTGACCTAAAGAGCATCGCCCTTCTTGCTCGAAATGCTGAATATAATCCCAAGAGG
TTTGCTGCTGTAATCATGAGAATAAGAGAGCCCCGAACCACTGCACTTTTATTCAGTTCTGGGAAGATGGTGTGCACAGG
AGGCAAGAGTGAAGAACAGTCCAGGCTAGCAGCAAGAAAATATGCCAGAATCATACAGAAGTTGGGTTTTCCAGCTAAGT
TCTTGGACTTCAAGATTCAGAATATGGTGGGGAGCTGTGATGTGAAGTTCCCCATAAGGTTAGAACCCCTTGTGCTTAGC
CACCAACAGTTCGCTAGTTATGAGCCAGAGTTATTTCCTGGTTTAGTCTACAGAATGATCAAACCGAGAATTGTTCTCCT
TATCTTTGTCTCTGGAAAAGTTGTGTTAACAGGTGCTAAAGTCAGAAGTGAAATTTATGAAGCCTTTAATAACATCTACT
CTATTCTAAAGGGTTTCAGGAAGACATCGTAA
ORF - retro_btau_79 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.61 % |
| Parental protein coverage: | 51.99 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | PLASITPMTPMAPISECSGIVPQLQNIVSTVNLACKLDLKKIALHAKNAEYNPKRFAAVIMRIREPRTTA |
| P.....PMTP..P.SE....VPQL.N.V.TVNL.CKLDLK.IAL.A.NAEYNPKRFAAVIMRIREPRTTA | |
| Retrocopy | PMTPMIPMTPAMPASEIAELVPQLHNVVCTVNLGCKLDLKSIALLARNAEYNPKRFAAVIMRIREPRTTA |
| Parental | LIFSSGKMVCTGAKSEEQSRLAARKYARVVQKLGFPARFLDFTIQNMVASCDVRFPISLEGLVLTHQQFS |
| L.FSSGKMVCTG.KSEEQSRLAARKYAR..QKLGFPA.FLDF.IQNMV.SCDV.FPI.LE.LVL.HQQF. | |
| Retrocopy | LLFSSGKMVCTGGKSEEQSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEPLVLSHQQFA |
| Parental | SYEPELFPGLIYRMVKPRIVLLIFVSGKVVLTGAKKRSDIYEAFENIYPILKGFKK |
| SYEPELFPGL.YRM.KPRIVLLIFVSGKVVLTGAK.RS.IYEAF.NIY.ILKGF.K | |
| Retrocopy | SYEPELFPGLVYRMIKPRIVLLIFVSGKVVLTGAKVRSEIYEAFNNIYSILKGFRK |
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 | 0 .00 RPM |
| ERP005899_muscle | 0 .00 RPM | 0 .00 RPM |
| SRP017611_brain | 0 .00 RPM | 0 .00 RPM |
| SRP017611_kidney | 0 .12 RPM | 0 .00 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .00 RPM |
| SRP030211_testis | 0 .01 RPM | 0 .02 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_79 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_79 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_79 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 | ENSBTAG00000018277 | 1 retrocopy |
retro_btau_79 ,
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