RetrogeneDB ID: retro_lper_13

Retrocopy location

• Organism: Leersia perrieri
• Coordinates: 1:3605321..3605888(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: LPERR01G05270
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: LPERR05G04920
• Aliases: None
• Description: None

Sequence

>retro_lper_13
ATGGCGGCTTCATTGGGACTTTGCCACGACACGTCATCCTACGCCTACTCATCCTTGTACGGCTTCCCTCCTCTCATGGC
CGACGACGTCGCCGCCGTCGACTACAACCGCAGCAGCTTCTTCCCGGCGGCCGAGTCGTCGTACTGCTCTCATCATCATC
ATCATCAGCTGCCCGTGGTGCTCGCCGGCGGCGGCGGCAACAGCAATGAGTACTATTATTCCGTGTCGTCGTCGTCGTCG
TCTTCGACGGCGGCGACGGCGGCGGCGGCGAGTAGTAGGATTGGGTTTAGGACGAGGTCGGAGGTGGAGGTGCTGGACGA
CGGGTACAAGTGGAGGAAGTACGGGAAGAAGGCGGTGAAGAGCAGCCCCAACCCGAGGAACTACTACCGATGCTCGGCGC
CAGGGTGCGGCGTCAAGAAACGCGTCGAGCGCGACCGACACGACCGCCGCTACGTCGTCACCACCTACGACGGCGTCCAC
AACCACGCCGCCAACGCCCCCACGCCGCCGTGGAGCATCGTGCGGCCGGCGGCGGCGGCGGCGCACTCGTCGGAGTCGTC
GTTCTGA

Alignment

ORF - retro_lper_13 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.38 %
• Parental protein coverage: 53.06 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GTVSDEYPDNESIMMRCESEEKKARVNGRIGFRTRSEVEIMDDGFKWRKYGKKAVKNSPNPRNYYRCSSE
          G..S.EY....S...........A....RIGFRTRSEVE..DDG.KWRKYGKKAVK.SPNPRNYYRCS..
Retrocopy GGNSNEYYYSVSSSSSSSTAATAAAASSRIGFRTRSEVEVLDDGYKWRKYGKKAVKSSPNPRNYYRCSAP

Parental  GCNVKKRVERDREDHRYVITTYDGVHNHASPGAT
          GC.VKKRVERDR.D.RYV.TTYDGVHNHA....T
Retrocopy GCGVKKRVERDRHDRRYVVTTYDGVHNHAANAPT

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_13 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Leersia perrieri	LPERR05G04920	1 retrocopy	retro_lper_13 ,