RetrogeneDB ID:

retro_slyc_38

Retrocopy
location
Organism:Tomato (Solanum lycopersicum)
Coordinates:5:1496348..1496828(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:Solyc05g006890.1
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:Solyc04g005510.2
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_slyc_38
ATGTCTGACGAAGAGCACCAATTTGAATCAAAAGCAGATGCCGGAGCTTCCAAAACTTACCCTCAACAAGCTGGTACTAT
TCGGAAGAACGGTTACATTGTAATCAAAGCTCGTCCTTGCAAGGTTGTGGAAGTCTCCACTTCCAAGACTGGCAAGCATG
GACACGCCAAATGTCACTTTGTAGCAATTGACATTTTCACTGGCAAGAAACTTGAGGATATTGTTCCCTCTTCGCACAAT
TGTGATGTCCCCCATGTTAATCGTACAGATTACCAGCTTATTGACATCTCCGAGGATGAATTTGTGAGTCTCCTCACTGA
CAGTGGTAATACTAAGGATGACCTGAGGCTTCCAACAGATGAGAATCTTCTCTCACTGATCAAGGATGGATTCGCGGAGG
GCAAAGACCTTGTTGTGTCTGTCATGTCTTCCATGGGAGAGGAACAGATTAATGCACTGAAGGATATTGGTCCCAAGTAA

ORF - retro_slyc_38 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 98.11 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMSDEEHQFESKADAGASKTYPQQAGTIRKNGYIVIKARPCKVVEVSTSKTGKHGHAKCHFVAIDIFTGKK
MSDEEHQFESKADAGASKTYPQQAGTIRKNGYIVIKARPCKVVEVSTSKTGKHGHAKCHFVAIDIFTGKK
RetrocopyMSDEEHQFESKADAGASKTYPQQAGTIRKNGYIVIKARPCKVVEVSTSKTGKHGHAKCHFVAIDIFTGKK
ParentalLEDIVPSSHNCDVPHVNRTDYQLIDISEDGFVSLLTDNGNTKDDLRLPTDENLLSLIKDGFAEGKDLVVS
LEDIVPSSHNCDVPHVNRTDYQLIDISED.FVSLLTD.GNTKDDLRLPTDENLLSLIKDGFAEGKDLVVS
RetrocopyLEDIVPSSHNCDVPHVNRTDYQLIDISEDEFVSLLTDSGNTKDDLRLPTDENLLSLIKDGFAEGKDLVVS
ParentalVMSAMGEEQINALKDIGPK
VMS.MGEEQINALKDIGPK
RetrocopyVMSSMGEEQINALKDIGPK

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_38 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 Solyc04g005510.2 1 retrocopy
retro_slyc_38 ,



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