RetrogeneDB ID: | retro_acar_90 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 2:60175761..60176045(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | COX4I1 | ||
| Ensembl ID: | ENSACAG00000005479 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_90
ATGTTGGTTTCAAGGGTATATAGCCTTCTTGGCAAAAGGGTGGTTTCCACTTCAGTTTGCTTCAGGGCACATGGGCATGG
CATTGTGAAACGGAGGACTTCAGCCTGCCCTCGTATTTCGACTGCCAGGATATCCCTTTGCTGGAGGTTGTGTATGTGAA
AGCACTCTCTTCTGGGCAGAAAGCCCTGAAAGAGAAAGAGAAGGTGTCATGGAATGCTCTTTCACTGGAGGATAAAGTTG
AACTGTACCGCATCAAATTCCATGAAAGCTTTGCTGAGATGAAT
ORF - retro_acar_90 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.29 % |
| Parental protein coverage: | 55.88 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MLASRAFSLLGKRAISTSVCLRAHGHGVVK-TEDFSLPSYVDRRDIPLPDVAYTKALSSGQKALKEKEKA |
| ML.SR..SLLGKR..STSVC.RAHGHG.VK.TEDFSLPSY.D..DIPL..V.Y.KALSSGQKALKEKEK. | |
| Retrocopy | MLVSRVYSLLGKRVVSTSVCFRAHGHGIVK<TEDFSLPSYFDCQDIPLLEVVYVKALSSGQKALKEKEKV |
| Parental | SWSALSLEDKVELYRIKFHESFAEMN |
| SW.ALSLEDKVELYRIKFHESFAEMN | |
| Retrocopy | SWNALSLEDKVELYRIKFHESFAEMN |
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 | 169 .89 RPM |
| SRP009831_brain | 0 .00 RPM | 234 .14 RPM |
| SRP009831_dewlap | 0 .00 RPM | 84 .54 RPM |
| SRP009831_embryo | 0 .00 RPM | 144 .46 RPM |
| SRP009831_heart | 0 .00 RPM | 172 .51 RPM |
| SRP009831_liver | 0 .00 RPM | 87 .53 RPM |
| SRP009831_lung | 0 .00 RPM | 87 .30 RPM |
| SRP009831_ovary | 0 .00 RPM | 82 .39 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 113 .13 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_90 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_90 was not experimentally validated.