RetrogeneDB ID: | retro_stub_102 | ||
Retrocopy location | Organism: | Potato (Solanum tuberosum) | |
| Coordinates: | 2:45911605..45912511(-) | ||
| 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: | PGSC0003DMG400000577 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_stub_102
TCCGTACGCAACTTCAGCACCAATTACAAAATCAAGCCACCCTAAAATTTGGGCATTCACTTTGTTCCTCAACAACAAGC
CTACGTAGTTGAACGTCTTGGTAAGTATACTACAACACTGAATCCAGGACTTAATTATTTGATTCCGTTTATCGATAAGA
TCCAATATGTACACTCCTTAAAGGAACAAGCAATTCTAATTTCAAGACAAACTGGGATTACCAAAGACAATGTGCCAATT
GAAATGGATGGTGTGCTTTATATAAGAATTATTGATCCTGTTTTAGCCTCATATGGAACAGAGGACCCTATTTACGCTGT
AGTCCAGTTAGCACAAACTACTATGCGTAGTGAGCTTGGGAAAATTACACTTGATAAGACTTTTGAAGAGCGAGTTGAAT
TGAATAGATGCATACTTAATGCGATTAACAATTGGCCTTTACGTACTGATTGGGGATTAGAGTGTTTAAGGTATGAGATC
AAGGATATAACACCACCGGAAGGTGTAAGAGTGGCTATGGAATTACAATCTGAAGCAGAGCGTAAGAAAAGGGCGAAAGT
CCTGATTTCTGAAGAGCAAAGACAAGCTGATGTAAATGTAGCAGATGGGAGGAAAATGGCTGTGATTTTGGAGTCTGAGG
CTGCTAAAAAAGACCAAGTGAATAGAGCTAAGGGAAAAGCTGATGCTATTTTATCTAATGCTCAAGCAACTGCGCATGCA
ATTACTGAGGTATCAAGAGCAATTCTTGAAGATGGAGGTTCTGATGCTACTAGTTTGAGGGTTGCTGAGCAGTATATTGA
AGTGCTTGAGAAGATAAACAAGATGGGGACCGTTACATTGCTTCCTCAAGATTCTAGTGATGCTGCTAGCCTAATTTCTC
AAGCAATTGCTATACACAGCAAACTT
ORF - retro_stub_102 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 63.25 % |
| Parental protein coverage: | 70.75 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | NARDPSVRYEIPPPVNWGVRIVPEKKAYVVERFGKYAKTLTPGIHVLIPFVDKIAYVHSLKEEAIPIPDQ |
| ..R..S..Y.I.PP.N.G...VP...AYVVER.GKY..TL.PG...LIPF.DKI.YVHSLKE.AI.I..Q | |
| Retrocopy | SVRNFSTNYKIKPP*NLGIHFVPQQQAYVVERLGKYTTTLNPGLNYLIPFIDKIQYVHSLKEQAILISRQ |
| Parental | SAITKDNVSILIDGVLYVKIVDPKLASYGVENPLYAVIQLAQTTMRSELGKITLDKTFEERDTLNEKIVM |
| ..ITKDNV.I..DGVLY..I.DP.LASYG.E.P.YAV.QLAQTTMRSELGKITLDKTFEER..LN..I.. | |
| Retrocopy | TGITKDNVPIEMDGVLYIRIIDPVLASYGTEDPIYAVVQLAQTTMRSELGKITLDKTFEERVELNRCILN |
| Parental | AINE--AAKDWGLKCLRYEIRDISPPRGVRAAMEMQAEAERKKRAQVLESEGERQANINIADGRKSSVIL |
| AIN......DWGL.CLRYEI.DI.PP.GVR.AME.Q.EAERKKRA.VL.SE..RQA..N.ADGRK..VIL | |
| Retrocopy | AINNWPLRTDWGLECLRYEIKDITPPEGVRVAMELQSEAERKKRAKVLISEEQRQADVNVADGRKMAVIL |
| Parental | ASEAAKMDQVNRALGEAEAILARAQATAKGIAMVSETLKEHGGAEAASLRIAEQYIQAFSNIAKEGTTLL |
| .SEAAK.DQVNRA.G.A.AIL..AQATA..I..VS....E.GG..A.SLR.AEQYI.....I.K.GT..L | |
| Retrocopy | ESEAAKKDQVNRAKGKADAILSNAQATAHAITEVSRAILEDGGSDATSLRVAEQYIEVLEKINKMGTVTL |
| Parental | LPTNASDPASMMSQALAVYKNV |
| LP...SD.AS..SQA.A..... | |
| Retrocopy | LPQDSSDAASLISQAIAIHSKL |
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_102 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 | PGSC0003DMG400000577 | 1 retrocopy |
retro_stub_102 ,
|