RetrogeneDB ID: | retro_acar_160 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | GL343210.1:1869358..1869720(+) | ||
| Located in intron of: | ENSACAG00000001021 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | C2ORF72 | ||
| Ensembl ID: | ENSACAG00000022814 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_160
CTGCTACGGAGTGTCTTCCGGGAGATGAAAGGAGCCGCCGCGGAGGAGACCCTGCAAGCCGCACTCTACATGCCCGGAGG
AAGAGGAGGAGGAGGAGCGGCCCAGGTCGAGGAGGCTGCGTGCAAGACACTCAGCGCCACCCTCAGGATTCAAGCAGATG
GGGTGGAAATCGAGACACAGAAGCTCCCTTTCTTCTTGCAGTGCCTTCCGTGGGGCAGAAGGAGACAGCAGAGAAAAGGC
AGTTGGAGACAGGAGCAAACAAGGTTAAGCAAGATGCCTCTCAAGATGCAGAAGAAGTCATGGCTTTGACTAGCATGGCA
CCTAATGGGAATTGTGAAGATGCCTGTGGAAAGGCAGGCATT
ORF - retro_acar_160 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.79 % |
| Parental protein coverage: | 57.69 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LLRGVFRERKGAAAEETLQAALYDPGG-GGGGAGQVQEAACKALSAALSIHADGVEIETQKLPFFLQCLP |
| LLR.VFRE.KGAAAEETLQAALY.PGG.GGGGA.QV.EAACK.LSA.L.I.ADGVEIETQKLPFFLQCLP | |
| Retrocopy | LLRSVFREMKGAAAEETLQAALYMPGGRGGGGAAQVEEAACKTLSATLRIQADGVEIETQKLPFFLQCLP |
| Parental | WGRRRQRRKG-QLEADANYPKTDASQDAEEVVALTSMAPNGNCEDPCGKKRI |
| WGRRRQ.RKG.QLE..AN..K.DASQDAEEV.ALTSMAPNGNCED.CGK..I | |
| Retrocopy | WGRRRQQRKG<QLETGANKVKQDASQDAEEVMALTSMAPNGNCEDACGKAGI |
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 .16 RPM | 3 .77 RPM |
| SRP009831_brain | 0 .09 RPM | 4 .12 RPM |
| SRP009831_dewlap | 0 .00 RPM | 44 .13 RPM |
| SRP009831_embryo | 0 .33 RPM | 3 .79 RPM |
| SRP009831_heart | 0 .16 RPM | 4 .05 RPM |
| SRP009831_liver | 0 .04 RPM | 51 .05 RPM |
| SRP009831_lung | 0 .76 RPM | 5 .84 RPM |
| SRP009831_ovary | 0 .04 RPM | 55 .36 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 0 .36 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_160 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_160 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 | ENSACAG00000022814 | 1 retrocopy |
retro_acar_160 ,
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