RetrogeneDB ID: | retro_acar_59 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 1:156124382..156124740(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PGAP2 | ||
| Ensembl ID: | ENSACAG00000028618 | ||
| Aliases: | None | ||
| Description: | post-GPI attachment to proteins 2 [Source:HGNC Symbol;Acc:17893] |
Retrocopy-Parental alignment summary:
>retro_acar_59
AACTGGAAAAAATCAAACAAGATGTTGCTTTTGACAAAGGTTTCTCTCTCAGCACACTCTTTAATATTCTCTGCACAGCA
TGAATGCATTTCTTTGCCCTCTGGCCTCTTTCTCTTTTTTGTTTGCTATTCTGACACTCCTGCGAACCCGAAATTCCAAA
TAGCCAGCTCGATCCAGAGATGCCATTCCATCAAGGCCAGATAGCTTGTTAGTAGCAGCCTCTGTCTGCTTGCTATCTAC
TGGGAAGCTGTCCTCCCTTTGCACCTGGCTAGTTTCAGTATCAACTCCCGTATTGTCAACATCATCCCCTGCCGTGGGAA
TGCCTCCCTGCTCTTCATCACTCACAACAGGAACACTC
ORF - retro_acar_59 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 54.1 % |
| Parental protein coverage: | 50.42 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | NLMENLALLLLTYVSSSENYLIHES-AFILFIASALSHMFLTCILWRMTKKHTISPEPARSRDSVSSRPD |
| N.......LLLT.VS.S...LI........F.....S..FL..IL.........S..PARSRD...SRPD | |
| Retrocopy | NWKKSNKMLLLTKVSLSAHSLIFSA>SMNAFLCPLASFSFLFAILTLLRTRN--SK*PARSRDAIPSRPD |
| Parental | SSLAAASVCTLSDWELSSLCTWLASVSSPVSTTSFPAMGMPPCSSSLTAGTL |
| S.L.AASVC.LS...LSSLCTWL.SVS.PV..TS.PA.GMPPCSSSLT.GTL | |
| Retrocopy | SLLVAASVCLLSTGKLSSLCTWLVSVSTPVLSTSSPAVGMPPCSSSLTTGTL |
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 |
|---|---|---|
| SRP009831_adrenal | 0 .00 RPM | 1 .77 RPM |
| SRP009831_brain | 0 .00 RPM | 3 .22 RPM |
| SRP009831_dewlap | 0 .00 RPM | 1 .86 RPM |
| SRP009831_embryo | 0 .00 RPM | 13 .19 RPM |
| SRP009831_heart | 0 .00 RPM | 6 .33 RPM |
| SRP009831_liver | 0 .00 RPM | 2 .05 RPM |
| SRP009831_lung | 0 .05 RPM | 7 .66 RPM |
| SRP009831_ovary | 0 .00 RPM | 2 .93 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 3 .50 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_59 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_59 was not experimentally validated.
Retrocopy orthology:
Anolis carolinensis 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 | |
|---|---|---|---|
| Anolis carolinensis | ENSACAG00000028618 | 1 retrocopy |
retro_acar_59 ,
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