RetrogeneDB ID: | retro_stub_116 | ||
Retrocopy location | Organism: | Potato (Solanum tuberosum) | |
| Coordinates: | 4:47418007..47418391(-) | ||
| 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: | PGSC0003DMG400012238 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_stub_116
ATGCAGATACTCGTGAAAACTCTGACCGGTAAACCATTACACTGGAAGTTGAATTCAGCGATACTATCAACAATGCTAAG
GCCAAGATACAAGACAAAGAAGGAATCCCTCCAGACCAGCAAAGGCTGATTTTTGCTGGTAAGCAGCTTGAGGATGGCCG
CACCTTGGCGGACTACAACATCCAGAAAAAATCAACTCTACATCTAGTGCTAAGGCTTCGTGGTGAGAATCATTGAGCCA
TCGTTGATGGCTTTGGCTAGGAAATACAATCAAGACAGGATGATATGCCGCAAGTGCAATGCTCGGTTGCATCCTCGTGC
TGACAACTGCCGCAAGAATAAATGTGAACACAACAACCAGTTGAGGCCTAAGAAGAATATTAAG
ORF - retro_stub_116 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 87.69 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | MQIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL |
| MQI.VKTLTGK.TITLEVE.SDTI.N.KAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQK.STLHL | |
| Retrocopy | MQILVKTLTGK<TITLEVEFSDTINNAKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKKSTLHL |
| Parental | VLRLRGG-IIEPSLMALARKYNQEKMICRKCYARLHPRAVNCRKKKCGHSNQLRPKKKIK |
| VLRLRG..IIEPSLMALARKYNQ..MICRKC.ARLHPRA.NCRK.KC.H.NQLRPKK.IK | |
| Retrocopy | VLRLRGE>IIEPSLMALARKYNQDRMICRKCNARLHPRADNCRKNKCEHNNQLRPKKNIK |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Solanum tuberosum was not studied using RNA-Seq expression data.
Solanum tuberosum was not studied using ChIP-Seq data.
Solanum tuberosum was not studied using EST data.
Solanum tuberosum was not studied using FANTOM5 data.
retro_stub_116 was not experimentally validated.
Retrocopy orthology:
Solanum tuberosum 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 | |
|---|---|---|---|
| Solanum tuberosum | PGSC0003DMG400012238 | 1 retrocopy |
retro_stub_116 ,
|