RetrogeneDB ID: | retro_sita_10 | ||
Retrocopy location | Organism: | Foxtail millet (Setaria italica) | |
| Coordinates: | 3:18434..18773(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | Si023695m.g | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | Si003115m.g | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_sita_10
ATGGCTTCCTTCGCCGAGGCCCCCGCCGGTGACGCCGGCAGCGGCGAGAAGATCTTCCGCACCAAGTGCGCGCAGTGCCA
CACGGTGGAGCGAGGCGGCGCGCACAAGCAGGGCCCCAACCTGCACGGCCTCTTCGGCCGCCAGTCCGGCACCACCCTCG
GCTACGCCTACTCCACGGCGAACAAGAACATGGCCGTCGTCTGGGGAGAAGGCACCCTCTACGACTACCTGCTCAACCCC
AAGAAGTACATCCCGGGCACCAAGATGGTCTTCCCGGGGCTCAAGAAGCCCAAGGAGCGCACCGATCTTATCGCCTACCT
CAAGGAATCCACGGCTTAA
ORF - retro_sita_10 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.36 % |
| Parental protein coverage: | 65.12 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MASFSEAPPGNPAAGEKIFKTKCAQCHTVDKGAGHKQGPNLNGLFGRQSGTTPGYSYSSANKNMAVIWEE |
| MASF.EAP.G....GEKIF.TKCAQCHTV..G..HKQGPNL.GLFGRQSGTT.GY.YS.ANKNMAV.W.E | |
| Retrocopy | MASFAEAPAGDAGSGEKIFRTKCAQCHTVERGGAHKQGPNLHGLFGRQSGTTLGYAYSTANKNMAVVWGE |
| Parental | NTLYDYLLNPKKYIPGTKMVFPGLKKPQERADLIAYLKNATA |
| .TLYDYLLNPKKYIPGTKMVFPGLKKP.ER.DLIAYLK..TA | |
| Retrocopy | GTLYDYLLNPKKYIPGTKMVFPGLKKPKERTDLIAYLKESTA |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Setaria italica was not studied using RNA-Seq expression data.
Setaria italica was not studied using ChIP-Seq data.
Setaria italica was not studied using EST data.
Setaria italica was not studied using FANTOM5 data.
retro_sita_10 was not experimentally validated.
Retrocopy orthology:
Setaria italica 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 | |
|---|---|---|---|
| Setaria italica | Si003115m.g | 1 retrocopy |
retro_sita_10 ,
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