RetrogeneDB ID: | retro_oana_10 | ||
Retrocopy location | Organism: | Platypus (Ornithorhynchus anatinus) | |
| Coordinates: | 7:23133265..23133748(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSOANG00000012950 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TWIST1 | ||
| Ensembl ID: | ENSOANG00000009614 | ||
| Aliases: | None | ||
| Description: | twist basic helix-loop-helix transcription factor 1 [Source:HGNC Symbol;Acc:12428] |
Retrocopy-Parental alignment summary:
>retro_oana_10
ATGGAGGAAAGTTCCAGTTCTCCTGTCTCTCCTGTGGATAGCTTGGGAACCAGCGAAGAAGAGCTCGAGAGACAGCCAAA
AAGATTTGGCAGGAAAAGAAGATACAGTAAGAAATCCAGTGAAGATGGCAGCCCCAATCCTGGAAAACGGGGTAAGAAGG
CCAGTCCCAGCTCCCAGTCTTATGAAGAACTTCAAAGCCAGAGGATCCTGGCCAATGTCAGGGAGAGGCAGAGGACGCAA
TCCCTCAATGAAGCATTTGCAGCCCTGAGGAAAATCATCCCCACCCTACCCTCGGACAAACTCAGTAAAATTCAGACTCT
CAAGCTTGCAGCCAGGTATATAGACTTCCTCTACCAGGTCCTCCAGAGCGACGAAATGGACAATAAGATGACAAGTTGCA
GCTATGTAGCCCATGAGAGACTCAGTTATGCCTTTTCCGTGTGGAGGATGGAAGGAGCATGGTCCATGTCGGCATCCCAC
TAG
ORF - retro_oana_10 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 77.56 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MQDASSSPVSPADDSLSNSDEEQDRPPPPGGKRGARKRRSSRRSDEPGSPAQGKRGKNGGGSPQSYEELQ |
| M...SSSPVSP.D.SL..S.EE..R.P....KR..RKRR.S..S.E.GSP..GKRGK....S.QSYEELQ | |
| Retrocopy | MEESSSSPVSPVD-SLGTSEEELERQP----KRFGRKRRYSKKSSEDGSPNPGKRGKKASPSSQSYEELQ |
| Parental | TQRVMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQVLQSDELDSKMASCSY |
| .QR..ANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQVLQSDE.D.KM.SCSY | |
| Retrocopy | SQRILANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQVLQSDEMDNKMTSCSY |
| Parental | VAHERLSYAFSVWRME |
| VAHERLSYAFSVWRME | |
| Retrocopy | VAHERLSYAFSVWRME |
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 |
|---|---|---|
| SRP007412_brain | 2 .12 RPM | 0 .18 RPM |
| SRP007412_cerebellum | 0 .28 RPM | 0 .19 RPM |
| SRP007412_heart | 0 .18 RPM | 0 .18 RPM |
| SRP007412_kidney | 0 .30 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .18 RPM |
| SRP007412_testis | 0 .12 RPM | 0 .12 RPM |
Ornithorhynchus anatinus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_oana_10 retrocopy.
Ornithorhynchus anatinus was not studied using FANTOM5 data.
retro_oana_10 was not experimentally validated.
Retrocopy orthology:
Ornithorhynchus anatinus 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Monodelphis domestica | ENSMODG00000023924 | 1 retrocopy | |
| Ornithorhynchus anatinus | ENSOANG00000009614 | 1 retrocopy |
retro_oana_10 ,
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