RetrogeneDB ID: retro_lper_8

Retrocopy location

• Organism: Leersia perrieri
• Coordinates: 5:10237171..10237702(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: LPERR05G10280
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: LPERR01G11720
• Aliases: None
• Description: None

Sequence

>retro_lper_8
ATGGAAGGCGGCATGGATTCCCCGACCCCGCGACGCGTGGTGGTGGCGGTGGACGAGAGCGAGGAGAGCATGCACGCCCT
CACCTGGTGCCTCTCCAACGTGGTCTCATCCGCCGCCGCCACAAAGTCCCCACCACCCAAGGTCGTCCTCGTCCACGCCC
GGCCCGCGCGGCCGCTCTACTACCCGGTGATCGACGGCGGCGGCTACGTCCTGACGCAGGAGGTGATGGAGAGCATGGAC
CGGTACATGGCCTCCGCGGCGGACACGGTGGTGGCCAAGGCGAGGAACATCTGCGCGGCGATGAGCCCGGGCGTGAGGGT
GGAGGCGAGGGTGGAGAAGGGCGACCCGCGCGAGGTGATCTGCGGCGCCGCCGAGGAGGCGGGCGGGGCGGACATGGTTG
TGATGGGGAGCCATGGGTATGGGTTTTTGCAGAGGACGCTGCTTGGGAGTGTGAGTAATCACTGCGTGCAGCACTGCAAG
TGCCCCGTCCTCGTCGTCAAGCGCCCCAACAACGACAACAAGGCGCAGTAA

Alignment

ORF - retro_lper_8 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.01 %
• Parental protein coverage: 86.03 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RRVVVAVDESEESMHALSWCLANVLSSSSSGAGDT--LVLLHARRPRPVY-AAMDSSGYMMTSDVMASMD
          RRVVVAVDESEESMHAL.WCL.NV.SS...........VL.HAR..RP.Y....D..GY..T..VM.SMD
Retrocopy RRVVVAVDESEESMHALTWCLSNVVSSAAATKSPPPKVVLVHARPARPLYYPVIDGGGYVLTQEVMESMD

Parental  KYAAAISAAAVDKAKRICAAF-PHVTVETLVESGDPRDVICDATEKMG-ADLLVMGSHGYGLIQRAFLGS
          .Y.A......V.KA..ICAA..P.V.VE..VE.GDPR.VIC.A.E..G.AD..VMGSHGYG..QR..LGS
Retrocopy RYMASAADTVVAKARNICAAMSPGVRVEARVEKGDPREVICGAAEEAGGADMVVMGSHGYGFLQRTLLGS

Parental  VSNHCAQNCKCPVLIVKRP
          VSNHC.Q.CKCPVL.VKRP
Retrocopy VSNHCVQHCKCPVLVVKRP

Legend:

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

Expression

RNA-Seq

Leersia perrieri was not studied using RNA-Seq expression data.

ChIP-Seq

Leersia perrieri was not studied using ChIP-Seq data.

EST

Leersia perrieri was not studied using EST data.

TSS

Leersia perrieri was not studied using FANTOM5 data.

Lab

retro_lper_8 was not experimentally validated.

Homology

Retrocopy orthology:

Leersia perrieri 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.

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Leersia perrieri	LPERR01G11720	1 retrocopy	retro_lper_8 ,
Prunus persica	PRUPE_ppa012501mg	1 retrocopy	retro_pper_12,