RetrogeneDB ID: | retro_btau_717 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 18:25640825..25641183(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ALKBH1 | ||
| Ensembl ID: | ENSBTAG00000008133 | ||
| Aliases: | None | ||
| Description: | alkylated DNA repair protein alkB homolog 1 [Source:RefSeq peptide;Acc:NP_001095690] |
Retrocopy-Parental alignment summary:
>retro_btau_717
ATGGGGAGGATGGCGGCTGTGGGCTCTACGGCGATGGTGGCAGTGGAGGACGCCTTCCAGAAGCTTTTCGGCTTCTACCT
ACAGAGCCGCCCCAGGGACCACAGGCCTGGGAGGGGACACCGACTTCCCACCAGCTCACACCCACGGCACAGGGCCTGGT
GCCCACAAGGTGGTCAAGTCTTAGCTAAATGTGTCCCTAGTCAGTGACCTCAGTGACAGAGCAAGACTTCAGCCAGTCAG
CAAGCGGTGAGCCTTTGGGCTGCAAGGCTATCTTGGATCTCTTTTTATCCCACACTCCTTCCCAGGTTACCAGTGGCACT
GCATAAAGCACTGCCTCTAAGTCAGCGGTCTCCAGCCT
ORF - retro_btau_717 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 59.06 % |
| Parental protein coverage: | 68.48 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MGKMAAAVGSVATLAVQPGEDAFRKLFRFYRQSRP-GTADLEGVIDFSVSHAARGTGPGAPKVVKSQLNL |
| MG.MAA.VGS.A..AV...EDAF.KLF.FY.QSRP.GT..L.G..DF...H...GTGPGA.KVVKS.LN. | |
| Retrocopy | MGRMAA-VGSTAMVAV---EDAFQKLFGFYLQSRP>GTTGLGGDTDFPPAHT-HGTGPGAHKVVKS*LNV |
| Parental | SSVSDHDALRAGLEPVSKWQAYGLQGYPGFIFISNPFLPGYQWHWVKQCLKLYSRKP |
| S.VSD....RA.L.PVSK..A.GLQGY.G..FI...F.PGYQWH..K.CL......P | |
| Retrocopy | SLVSDLSD-RARLQPVSKR*AFGLQGYLGSLFIPHSF-PGYQWHCIKHCL*VSGLQP |
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 | 8 .80 RPM |
| ERP005899_muscle | 0 .05 RPM | 6 .44 RPM |
| SRP017611_brain | 0 .00 RPM | 8 .04 RPM |
| SRP017611_kidney | 0 .00 RPM | 13 .57 RPM |
| SRP017611_liver | 0 .00 RPM | 5 .21 RPM |
| SRP030211_testis | 0 .01 RPM | 18 .59 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_717 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_717 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_717 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 | ENSBTAG00000008133 | 1 retrocopy |
retro_btau_717 ,
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