RetrogeneDB ID: | retro_pabe_1269 | ||
Retrocopy location | Organism: | Orangutan (Pongo abelii) | |
| Coordinates: | 15:89580627..89581083(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ASB9 | ||
| Ensembl ID: | ENSPPYG00000020140 | ||
| Aliases: | None | ||
| Description: | ankyrin repeat and SOCS box containing 9 [Source:HGNC Symbol;Acc:17184] |
Retrocopy-Parental alignment summary:
>retro_pabe_1269
ATGGATGGCAAACAAGGGGGCATGGATGGGAGCAAGCCCACGGGGCCAGGAGACTCTCCTGACACCAGGCTTCTTTCAAA
CCCATTGATGGGTGATTCTGTGTCTGATTGGTCTCTTACGCCTGCAGCTGCAATCCACGGACATCAGCTGTCTCTGAGGA
ACCTCATCAGCCAGAGGTGGCTTGTGAACATCATCACGGCAGATCGTGTTTCCCCACTCCATGAAGCCTGTCTCAGAGGT
CATCCCTCTTGTGTAAAGATTTTATTAAAGCATGGAGCTCAGGTGAATGGTGTGACAACAGATTGGCACACTCCACTGTT
TAATGTTTGTGTCAGCAGCAGCCGGGATTATGTGAATTTGCTTCTGCAGTATGAGGCCAGCGTTCAACCTGAGTGTGATC
TGGCATCCCCCATCCATGAAGCTGCTGGGAGAGACCACGTGGAGTGTGTCGACTCT
ORF - retro_pabe_1269 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 86.84 % |
| Parental protein coverage: | 58.02 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MDGKQGGMDGSKPAGPRDSPDIRLLSNPLMGDAVSDWSPMHEAAIHGHQLSLRNLISQGWPVNIITADHV |
| MDGKQGGMDGSKP.GP.DSPD.RLLSNPLMGD.VSDWS....AAIHGHQLSLRNLISQ.W.VNIITAD.V | |
| Retrocopy | MDGKQGGMDGSKPTGPGDSPDTRLLSNPLMGDSVSDWSLTPAAAIHGHQLSLRNLISQRWLVNIITADRV |
| Parental | SPLHEACLGGHPSCVKILLKHGAQVNGVTTDWHTPLFNACVSGSRDCVNLLLQHGASVQPESDLASPIHE |
| SPLHEACL.GHPSCVKILLKHGAQVNGVTTDWHTPLFN.CVS.SRD.VNLLLQ..ASVQPE.DLASPIHE | |
| Retrocopy | SPLHEACLRGHPSCVKILLKHGAQVNGVTTDWHTPLFNVCVSSSRDYVNLLLQYEASVQPECDLASPIHE |
| Parental | AARRGHVECVDS |
| AA.R.HVECVDS | |
| Retrocopy | AAGRDHVECVDS |
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_prefrontal_cortex | 0 .00 RPM | 0 .22 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .12 RPM |
| SRP007412_heart | 0 .06 RPM | 0 .12 RPM |
| SRP007412_kidney | 0 .13 RPM | 20 .12 RPM |
| SRP007412_liver | 0 .09 RPM | 2 .82 RPM |
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_1269 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_1269 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_pabe_1269 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Macropus eugenii | ENSMEUG00000002950 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000020140 | 1 retrocopy |
retro_pabe_1269 ,
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