RetrogeneDB ID: retro_lper_11

Retrocopy location

• Organism: Leersia perrieri
• Coordinates: 3:29304414..29305488(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: LPERR03G35400
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: LPERR02G23460
• Aliases: None
• Description: None

Sequence

>retro_lper_11
ATGGCGTTGCCGGCGACGGCGGCGCTACTGCTGGCGGCGTGCACGATGATGATCACGTCGGCGACGATCGCCGTGGCGTG
GTCGGGATTCGAAGGCGTCCCAACGATGTCATTCGACGAAGGTTTCTCACCACTGTTCGGCGAGGACAACATGGAGAAAT
CACCAGACGGGCGCACAGTGAGCATAACTCTGAATCGCTACACGGGTTCAGGATTCATCTCCTCCTCCTACTACCACCAC
GGCCTCTTCAGCTCCTCCATCAAGCTCCCCAAGGACCACACGGCCGGCGTCGTCGTCGCCTTCTACCTCTCCAACGGCGA
CGTCTTCGAGAAGACCCACGACGAGCTCGACTTCGAGTTCCTCGGCAACAGATACCGTCACGAATGGAAGATGCAGACCA
ACGTGTACGGCAACGGCAGCACGGATCGTGGCCGTGAGGAGAGATATCTCATGCCGTTCGATCCGACGGCCGAATCGCAC
CGATTCTCCATCCTCTGGTCGTCGAGTCTCATCGTCTTCTTCGTCGACGGCGTCCCAATTCGCGAGGTGCCACGGTCGCC
GGCGATGGGGGCGGATTTCCCGTCCAAGCCCATGGCTTTATACGTCACGATTTGGGACGGATCGACATGGGCGACTGACA
ATGGCAAGTACAAGGTCAACTACAAGCGTGGGCCTTTCACCGCCGTCTTCTCCGACCTCGTCATCCGCGGCTGCCGCGCC
ACCGCCGCCATCGTCGCCGACGAGGAGCGTGACAGTTGCGCGGCGGCGGAGATGGAGTTGTTGACGGCGGAGTACGGCGT
GATGACGGCGAGGAAGAGGATGGAGATGAGGAGGTTCAGGCAGAGGCAGATGCTGTACACGGTTTGCTACGATACGAACA
GGTATCCGGAGGCGTTCCCGGAGTGTGACGTCAACATGGCGGAGAGGCAGATGTATTGGCAATGGGGGGAATCCAAGGTT
GTTCGTCCTCGCGTCCGGCCGCGTCCCGGCCGCCGTGGAAAGCGCCGCCCGCTGATCACGGCGGCCATGGCCGTCCCGCC
GCCGGCGCTCGTCTCCTTGCAGCAAGCAGACTGA

Alignment

ORF - retro_lper_11 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.52 %
• Parental protein coverage: 92.42 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AAVFAVAATFLCLSTAAATAASGFV-VPSIAFDEGFSPLFGDDNLVRSSDGKSVRLLLDRRSGSGFISSD
          AA....A.T....S...A.A.SGF..VP...FDEGFSPLFG.DN...S.DG..V...L.R..GSGFISS.
Retrocopy AALLLAACTMMITSATIAVAWSGFEGVPTMSFDEGFSPLFGEDNMEKSPDGRTVSITLNRYTGSGFISSS

Parental  YYLHGFFSASIKLPKAYTAGVVVAFYLSNGDVYEKTHDELDFEFLGSRWGGQWRVQTNVYGNGSTARGRE
          YY.HG.FS.SIKLPK..TAGVVVAFYLSNGDV.EKTHDELDFEFLG.R....W..QTNVYGNGST.RGRE
Retrocopy YYHHGLFSSSIKLPKDHTAGVVVAFYLSNGDVFEKTHDELDFEFLGNRYRHEWKMQTNVYGNGSTDRGRE

Parental  ERYLLPFDPTLEAHRYSVLWAPTHIIFYIDDTPIREVIRHTGMGGDFPAKPMAVYATIWDGSAWATDGGK
          ERYL.PFDPT.E.HR.S.LW....I.F..D..PIREV.R...MG.DFP.KPMA.Y.TIWDGS.WATD.GK
Retrocopy ERYLMPFDPTAESHRFSILWSSSLIVFFVDGVPIREVPRSPAMGADFPSKPMALYVTIWDGSTWATDNGK

Parental  YKVNYKYAPFASEFTDLALHGRRADPVLRAPRGRDE-PDLLFRLLTADYAVMTPQKRAAMRAFRGRHMTY
          YKVNYK..PF...F.DL...G.RA.....A...RD........LLTA.Y.VMT..KR..MR.FR.R.M.Y
Retrocopy YKVNYKRGPFTAVFSDLVIRGCRATAAIVADEERDSCAAAEMELLTAEYGVMTARKRMEMRRFRQRQMLY

Parental  TVCYDAVRYADGPFPECDNSYVEKESFSAWGESKNVVLKARGGRGRRRGRK
          TVCYD..RY....FPECD....E......WGESK.V....R...GRR..R.
Retrocopy TVCYDTNRYPEA-FPECDVNMAERQMYWQWGESKVVRPRVRPRPGRRGKRR

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_11 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	LPERR02G23460	1 retrocopy	retro_lper_11 ,