RetrogeneDB ID: | retro_acar_196 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | GL343577.1:21043..21369(-) | ||
| Located in intron of: | ENSACAG00000006061 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSACAG00000026874 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_196
GAGGGTAAGGGAGATGGGAAATTCTGGAAATGCGGAAAACATAACTGAGATTTTATACACATGTGGTGGGGATGTAGGAA
AATAAAAAGGCTTTGGCAGGAAATCAACAAAGAAATGGAGAAAATACTCCAAATTAAATTTGATTTAAAACCAGAATACT
TCCTTCTAGGTATTGTAGATTTTCAGATTGATTCCAATACAGAAAAACTCTTCATATATATATGGTAACAGCTGCCAGGA
TATGTATAGCCAAAGTATGGAAAATGCAAGAAATCCCCACAATAGAAAAATGGATGCTGAAACTAATAGACATTAAAAAT
ATGGAT
ORF - retro_acar_196 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 69.37 % |
| Parental protein coverage: | 59.14 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | KGEGDGKCWKCQKHNGDFMHMWWGCRKIKKFWQEINREMEKILQIKFNTKPEYFLLGMVDFQMD-FNREK |
| .G.GDGK.WKC.KHN.DF.HMWWGCRKIK..WQEIN.EMEKILQIKF..KPEYFLLG.VDFQ.D.F...K | |
| Retrocopy | EGKGDGKFWKCGKHN*DFIHMWWGCRKIKRLWQEINKEMEKILQIKFDLKPEYFLLGIVDFQID<FQYRK |
| Parental | LFIYLYFLINFIICIAKLWKTQETPTLETWILKLIDIKNMD |
| .....Y......ICIAK.WK.QE.PT.E.W.LKLIDIKNMD | |
| Retrocopy | T-LHIYMVTAARICIAKVWKMQEIPTIEKWMLKLIDIKNMD |
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 .07 RPM | 0 .07 RPM |
| SRP009831_brain | 0 .09 RPM | 0 .00 RPM |
| SRP009831_dewlap | 0 .00 RPM | 0 .00 RPM |
| SRP009831_embryo | 0 .15 RPM | 0 .00 RPM |
| SRP009831_heart | 0 .05 RPM | 0 .00 RPM |
| SRP009831_liver | 0 .00 RPM | 0 .00 RPM |
| SRP009831_lung | 0 .50 RPM | 0 .05 RPM |
| SRP009831_ovary | 0 .00 RPM | 0 .00 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 0 .00 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_196 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_196 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 | ENSACAG00000026874 | 1 retrocopy |
retro_acar_196 ,
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