RetrogeneDB ID: | retro_alyr_39 | ||
Retrocopy location | Organism: | Lyre-leaved rock-cress (Arabidopsis lyrata) | |
| Coordinates: | 8:17571156..17571405(-) | ||
| 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: | Al_scaffold_0007_2598 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_alyr_39
ACTCCTCCGCGAGAATTCACCTGAAAAATCTCATGTCTCGATAGGCCTTCGACCAACCCACACCGTAGCCACCTTCTGGA
ACTCATATTTCTTAAACGCAACACAAGAGATGGATCCGCCGTGACCACCGGTGACCAGAGCAAACCTAGCCTCATTGGAA
ACATCAATAGGGAAACCATTCGAGCCACGGGTGAGACTTTTCACCTTCTTGTTTCCATAAATCTGATGGTTTGTTTACTA
ATTCCTCTT
ORF - retro_alyr_39 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.12 % |
| Parental protein coverage: | 77.27 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | TPPREFTWKISCLDRPSTNPHRSHLLELIFLKRNTRDRSAVITGDRSKPSLIGNINRKTIQATGFRFHLV |
| TPPREFT.KISCLDRPSTNPHRSHLLELIFLKRNTRD.SAV.TGD.SKPSLIGNINR.TI.ATG..FHL. | |
| Retrocopy | TPPREFT*KISCLDRPSTNPHRSHLLELIFLKRNTRDGSAVTTGDQSKPSLIGNINRETIRATGETFHLL |
| Parental | TWIKVLDSICAILKM |
| ..I......C..... | |
| Retrocopy | VSINLM--VCLLIPL |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Arabidopsis lyrata was not studied using RNA-Seq expression data.
Arabidopsis lyrata was not studied using ChIP-Seq data.
Arabidopsis lyrata was not studied using EST data.
Arabidopsis lyrata was not studied using FANTOM5 data.
retro_alyr_39 was not experimentally validated.
Retrocopy orthology:
Arabidopsis lyrata 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 | |
|---|---|---|---|
| Arabidopsis lyrata | Al_scaffold_0007_2598 | 1 retrocopy |
retro_alyr_39 ,
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