RetrogeneDB ID: | retro_acar_87 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 2:199515441..199515795(+) | ||
| Located in intron of: | ENSACAG00000017226 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSACAG00000024337 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_87
TATCCTAATTCTGATGTCCTTCTTGCAGAGAAGCCAGAAGTGAAGGTGACACGCAAGGAGGACTATGATGGGATGGAGAC
CCTGACCTGTCATGTTGGCGGCTTTTACCCCAAGGAGATTGACATCACCTGGACAAAGGATGGGGAGGACAGGCGTCAGG
ATGTCTTCCATGGCCTGGTGTCCCCCAACTCAGATGGGACTTACTACACCTGGTGGAGCATCACGGTGGACCCCAAGGAG
AGGGAACGCTACAAATGCCACGTGGAGCACGATGGGCTTCTTAACCCCATGGACGTGGTCTGGGAGGCGTGTGGTGAGTC
ATTTGAGAGGAGGATTATGGGAAGGACAAGAGGA
ORF - retro_acar_87 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 78.99 % |
| Parental protein coverage: | 86.86 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | YPNSDVILAEKPEVKVTRKVDYDGMETLICWVGGFYPKEIDIITWTKDGEDRQQDTFHGLVSPNSDGTYY |
| YPNSDV.LAEKPEVKVTRK.DYDGMETL.C.VGGFYPKEIDI.TWTKDGEDR.QD.FHGLVSPNSDGTYY | |
| Retrocopy | YPNSDVLLAEKPEVKVTRKEDYDGMETLTCHVGGFYPKEIDI-TWTKDGEDRRQDVFHGLVSPNSDGTYY |
| Parental | TWRSITVDPKERECYKCHVEHDGLLNPVDVAWEEPDSASKSVLIGCAMG |
| TW.SITVDPKERE.YKCHVEHDGLLNP.DV.WE...........G...G | |
| Retrocopy | TWWSITVDPKERERYKCHVEHDGLLNPMDVVWEACGESFERRIMGRTRG |
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 | 4 .73 RPM | 0 .10 RPM |
| SRP009831_brain | 0 .33 RPM | 0 .00 RPM |
| SRP009831_dewlap | 0 .08 RPM | 0 .00 RPM |
| SRP009831_embryo | 0 .09 RPM | 0 .00 RPM |
| SRP009831_heart | 1 .66 RPM | 0 .00 RPM |
| SRP009831_liver | 2 .66 RPM | 0 .08 RPM |
| SRP009831_lung | 2 .32 RPM | 0 .00 RPM |
| SRP009831_ovary | 0 .04 RPM | 0 .00 RPM |
| SRP009831_skeletal_muscle | 0 .66 RPM | 0 .00 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_87 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_87 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 | ENSACAG00000024337 | 1 retrocopy |
retro_acar_87 ,
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