RetrogeneDB ID: | retro_acar_142 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 5:115652513..115652828(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSACAG00000014223 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_142
ATGGCAGGCCCTCACATCGGGCAGATCAAAATCAAAACAGACGTAGTGAAACGTTTGGCAAAGGAAAGGGTTATGTGTGA
AAAGGAAGCAAATCAACAGGAAGAAAAGACTGAAAAAATGAAAACTGAAGATCCTGATGACTATTCAATAAAAAAGCAGA
TTGAAGTCTTGCAGGAATCTTGAATGATGATTCCAGATTGCCAACGCAGATTAGAGGCTGATCTTGTTCAACTATTAGAA
AATGAAAAGGAATTTGAAGAAACTGACGAATATAAAGATGCATTCTCAGTACTGGAGTCAATAAAGTTAGAAGCC
ORF - retro_acar_142 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 87.04 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MADPRVRQIKIKTGVVKRLAKERVMYEKEAKQQEEKIEKMKTEDPDDYSIKKQIEVLQESRMMIPDCQRR |
| MA.P...QIKIKT.VVKRLAKERVM.EKEA.QQEEK.EKMKTEDPDDYSIKKQIEVLQES.MMIPDCQRR | |
| Retrocopy | MAGPHIGQIKIKTDVVKRLAKERVMCEKEANQQEEKTEKMKTEDPDDYSIKKQIEVLQES*MMIPDCQRR |
| Parental | LEAARADLVQLLENEKELEETDEYKDAFSVLESIKLDA |
| LEA...DLVQLLENEKE.EETDEYKDAFSVLESIKL.A | |
| Retrocopy | LEA---DLVQLLENEKEFEETDEYKDAFSVLESIKLEA |
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 | 130 .47 RPM |
| SRP009831_brain | 0 .00 RPM | 98 .80 RPM |
| SRP009831_dewlap | 0 .00 RPM | 67 .63 RPM |
| SRP009831_embryo | 0 .00 RPM | 95 .79 RPM |
| SRP009831_heart | 0 .00 RPM | 46 .64 RPM |
| SRP009831_liver | 0 .00 RPM | 54 .40 RPM |
| SRP009831_lung | 0 .00 RPM | 29 .77 RPM |
| SRP009831_ovary | 0 .00 RPM | 71 .19 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 12 .24 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_142 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_142 was not experimentally validated.