RetrogeneDB ID: | retro_shar_516 | ||
Retrocopy location | Organism: | Tasmanian devil (Sarcophilus harrisii) | |
| Coordinates: | GL849750.1:141005..141473(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TMEM109 | ||
| Ensembl ID: | ENSSHAG00000009642 | ||
| Aliases: | None | ||
| Description: | transmembrane protein 109 [Source:HGNC Symbol;Acc:28771] |
Retrocopy-Parental alignment summary:
>retro_shar_516
AGATCGGGCGGCAGCTTCGTGATGGGGCGAATTCCGCCCCAGGCCCTCCTGGTGGCCTCCGTGGCCCTCCTCCTCGCCCT
GCACGCGGCAAGCTCCCACAGGGACTTCCACTTTAGAAAACCCCAGAAGAAGGACCCCGTGGCCGACTTCCTGTCCCAAA
CAGCGGCGGCCATTCGGGAGGCGATGGAAGCGCTGCTCGGGCCCGAGCTCGTGCACTTCCTGGCCGAGATCTTGCCGACC
GTCTCTTCGGTCCTCTCGGAGTTTTGCTTCACGCTCTCCCGGGTCTCCGCGCAGCTGCTGGACGCCGTGGGGCTGGAGGG
GGACCACCTCACGCGGGCCTTGAAGCTCAGCCCTGACGAAGTTCAGGTCCTCCTCCTGTGGGGCTTCGGGGCCCTCGCGG
CCTACTGGATGCTGGCCCTGCTGGGCCAGGGCTTGAAGCTGCTCCTCTTCCTCGTGGCCTTTGTGGTG
ORF - retro_shar_516 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 58.12 % |
| Parental protein coverage: | 65.15 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | RLGSRFLMGRAVPKALLAAFVALLLVLHVANSQQDFQSRKQQKDHPPTDFLSQTGWAIRETMDAWIGPEV |
| R.G..F.MGR..P.ALL.A.VALLL.LH.A.S..DF..RK.QK..P..DFLSQT..AIRE.M.A..GPE. | |
| Retrocopy | RSGGSFVMGRIPPQALLVASVALLLALHAASSHRDFHFRKPQKKDPVADFLSQTAAAIREAMEALLGPEL |
| Parental | MHVVAETLSQVLWAVSSALSVACFALSGISAQLLSAMGLHGEHLTQGLKLSPGQVQTFLLWGAGALVAYW |
| .H..AE.L..V....SS.LS..CF.LS..SAQLL.A.GL.G.HLT..LKLSP..VQ..LLWG.GAL.AYW | |
| Retrocopy | VHFLAEILPTV----SSVLSEFCFTLSRVSAQLLDAVGLEGDHLTRALKLSPDEVQVLLLWGFGALAAYW |
| Parental | VLALL---LGLLLALLGRIL |
| .LALL...L.LLL.L..... | |
| Retrocopy | MLALLGQGLKLLLFLVAFVV |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Sarcophilus harrisii was not studied using RNA-Seq expression data.
Sarcophilus harrisii was not studied using ChIP-Seq data.
Sarcophilus harrisii was not studied using EST data.
Sarcophilus harrisii was not studied using FANTOM5 data.
retro_shar_516 was not experimentally validated.
Retrocopy orthology:
Sarcophilus harrisii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Sarcophilus harrisii | ENSSHAG00000009642 | 1 retrocopy |
retro_shar_516 ,
|