RetrogeneDB ID:

retro_slyc_76

Retrocopy
location
Organism:Tomato (Solanum lycopersicum)
Coordinates:4:51877117..51877371(+)
Located in intron of:Solyc04g054170.2
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:Solyc01g097870.2
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_slyc_76
ATGGCAGACAAGATAGTGACTATTAGAACTAGGAAGTTCATGACCAATAGATTATTTGCAAGGAAACAATTCATTATTGA
TGTCTTACATCCTGGAAGAGTCAATGTTTTTAACGCTGATTTGAAAGAAAATTGGCAAGGATGTATGAAGTGAAAGATTT
AAATGCCATCTATGTGAAGTTCAGAACCCACTTTCGAAGAGGCAAATCTTCTGGCTTTGATTTGATCTATGACTGTTGAG
AATGCAGAGAAAAA

ORF - retro_slyc_76 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.16 %
Parental protein coverage: 64.66 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMADKAVTIRTRKFMTNRLLARKQFIIDVLHPGRANVSKAELKE-KLARMYEVKDANAIFVFKFRTHFGGG
MADK.VTIRTRKFMTNRL.ARKQFIIDVLHPGR.NV..A.LKE.KLARMYEVKD.NAI.V.KFRTHF..G
RetrocopyMADKIVTIRTRKFMTNRLFARKQFIIDVLHPGRVNVFNADLKE<KLARMYEVKDLNAIYV-KFRTHFRRG
ParentalKSTGFGLIYDSVENAKK
KS.GF.LIYD..E...K
RetrocopyKSSGFDLIYDC*ECREK

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Solanum lycopersicum was not studied using RNA-Seq expression data.
Solanum lycopersicum was not studied using ChIP-Seq data.
Solanum lycopersicum was not studied using EST data.
Solanum lycopersicum was not studied using FANTOM5 data.
retro_slyc_76 was not experimentally validated.

Retrocopy orthology:
Solanum lycopersicum 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 lycopersicum Solyc01g097870.2 1 retrocopy
retro_slyc_76 ,



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