RetrogeneDB ID: | retro_stub_106 | ||
Retrocopy location | Organism: | Potato (Solanum tuberosum) | |
| Coordinates: | 3:35205984..35206372(+) | ||
| 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: | PGSC0003DMG400026015 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_stub_106
AAGCCCAACACTTGAATTGTCATGCCTCACTCTTCCAACAATATCATAGTTACAATGCAACCACAAAAAGAGGAACCACC
AGTGATGCAATGCAAGGATACATTCATGCTTCAAAGTTTTGCTGGCAACCCTAGAACTATTGCAAAGGACATTAATCTCG
AGATATTCAATAAGAAGTCGGAGAAATACGTAAAGGACTGCAAGCTGAAACTGATTTATATATGTTCCACCTCAAGTGCC
ACTGCATGTAAGGGAGGGGTCTTCTTCTCCTAGGGCTATAGTATCCGAATATAGCACTGTAAATATATCCGAGCTTAGTA
ATATTTCAAGGTGATATAATGCACAACAAGACAGCTCGTTTGAGACAAAGGTGAAGGTTTACAGAGTT
ORF - retro_stub_106 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 51.13 % |
| Parental protein coverage: | 54.7 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | RPNTGIVMPRSTCEVIVTMQAQKEAPPDMQCKDKFLLQSVIVSPGTMAKDITPEMFNKESGNHVEEVKLR |
| .PNT.IVMP.S....IVTMQ.QKE.PP.MQCKD.F.LQS....P.T.AKDI..E.FNK.S...V...KL. | |
| Retrocopy | KPNT*IVMPHSSNNIIVTMQPQKEEPPVMQCKDTFMLQSFAGNPRTIAKDINLEIFNKKSEKYVKDCKLK |
| Parental | VAYV-PPQPPPSPVREGSEEGSSPRASISE----NGAEFHNASRTYAEPQDNSSETKALILKL |
| ..Y...P...P..VREGS...SSPRA..SE....N..E..N.SR.Y...QD.S.ETK...... | |
| Retrocopy | LIYI>VPPQVPLHVREGS---SSPRAIVSEYSTVNISELSNISR*YNAQQDSSFETKVKVYRV |
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_106 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 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Solanum tuberosum | PGSC0003DMG400026015 | 3 retrocopies |
retro_stub_106 , retro_stub_110, retro_stub_96,
|