RetrogeneDB ID: retro_lper_9

Retrocopy location

• Organism: Leersia perrieri
• Coordinates: 5:6532575..6533766(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: LPERR05G07080
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: LPERR12G15310
• Aliases: None
• Description: None

Sequence

>retro_lper_9
ATGGCGTCGCAGACGGAGAACAAGGTTGATCCCCCCGAAGAAATCATCAAGGAGGAGAAGTTCATGTACGCAGAAGACCT
CGACCTCGCACGCGTCGACCTATTTCTTGAGGAGAAGATGGCGGCTACCGCTCTGGGCCATCATCGCCTTAGCATCAGCA
GCAACGGCGGCGACGGCGAGAAGGATGAGATCATAACGGTGGCGCCGGCGGCGGCGGCGGAGGCGGCGTGGGAGATGGAC
TTCTCAAAGCTGCACATCCCCAAAAACGTCGAAATCAAGAAAGGCTACCACGGCGTGCTGTTCCGCGCCGACTACGGCGG
CCGCGACGTCGCTGTGAAGATCCTCCAGTGGGGAGCAGACGGCTACTCGACGCCCGACCAGATCGCCCACCTTCGGGCGT
CGCTCAAGGAGGTCGCCGCCGCCTGGCACGAGATCGACCACCCCAACATCACCAAGTTCCACGGCGCGTCCATTGGCGCC
GACCTCGACGACATCCCAGCCGCCGCCGCCGACGAGATCTCGAGCTCCGTCGCCGCCCGTGCCGCGTCGGTAAGCTGGGT
CGTGGTCGAGTACCTCACCGGAGGAACGCTCAAGCACCACCTGATCCAACACATTGACTCTAAGCTGCCTTACAAGGATG
TCGTCGACTTGGCGCTCGCGATGGCGAGAGGGCTAAGCTACTTGCACTCGAGGAAGATTGTTCACCGCGACGTCAAGACG
GAGAACATGCTGCTTGACGACGAGGGCAACCTAAAGATTGCTGATTTTGGGGTGGCACGTATTGAGGTCGACCCGAAGGA
GATGACTGGCAATACCGGCACGTTGATCTATATGGCTCCAGAGGTGCTCGATAGGAAGCCGTACAATCACAAGTGTGATG
TGTACAGCTTTGGTATTTGCTTATGGGAGATCTACTGCTGCCAGATGCCGTACGTGGACTGCAATTTTGCTGACCTCTCG
TGGAAGATCGTTCATAGTCACCTGAGGCCAGAGATCCCGAGGTGCTGTCCGAAAGACTTGGCGAAAATCATGCAGAGGTG
TTGGGATGCCAACCCAGAGAAGCGACCGGAGATGGAGGAGGTGATAAGGCTGTTGCAGGCACTTAATATCAAGAAAGGTC
GTGGCATGTTGCCACGGAAGAAAAAATCCTCTGGTTGCTTTTGCCTTCCCCTCGGCCGTAGGAGCTCATAG

Alignment

ORF - retro_lper_9 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.11 %
• Parental protein coverage: 84.21 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KAAWEIDLSKLEIGHVVA--HGNHGTLFRGEYYGQDVAVKLLDWGEDGASTEDQIAHFRTSLKEVVAVWH
          .AAWE.D.SKL.I...V....G.HG.LFR..Y.G.DVAVK.L.WG.DG.ST.DQIAH.R.SLKEV.A.WH
Retrocopy EAAWEMDFSKLHIPKNVEIKKGYHGVLFRADYGGRDVAVKILQWGADGYSTPDQIAHLRASLKEVAAAWH

Parental  EIDHPNITKFIGASMGTTDLNIPENVPDKSSSKGARTARPDRACCVVVEFITGCTLKQYLIKQFKKNKKL
          EIDHPNITKF.GAS.G.....IP....D..SS..A..AR......VVVE..TG.TLK..LI.......KL
Retrocopy EIDHPNITKFHGASIGADLDDIPAAAADEISSSVA--ARAASVSWVVVEYLTGGTLKHHLIQHI--DSKL

Parental  AYKEVVRLALDLARGLSFLHSKKVVHRDVKTENMLLDSQLNLKIADFGVARLEAIDPRDMTGTTGTLTYM
          .YK.VV.LAL..ARGLS.LHS.K.VHRDVKTENMLLD...NLKIADFGVAR.E..DP..MTG.TGTL.YM
Retrocopy PYKDVVDLALAMARGLSYLHSRKIVHRDVKTENMLLDDEGNLKIADFGVARIE-VDPKEMTGNTGTLIYM

Parental  APEVLAGKPYNRKCDVFSFGICLWEMYCCDMPHGDLNVSVADFSSAVVHENLRPVIPDYCPKEMASIIQR
          APEVL..KPYN.KCDV.SFGICLWE.YCC.MP..D.N...AD.S...VH..LRP.IP..CPK..A.I.QR
Retrocopy APEVLDRKPYNHKCDVYSFGICLWEIYCCQMPYVDCN--FADLSWKIVHSHLRPEIPRCCPKDLAKIMQR

Parental  CWDANPLVRPEMQEVVGLLEGLDTSNGGGLAPETKQPSGCFC
          CWDANP..RPEM.EV..LL..L....G.G..P..K..SGCFC
Retrocopy CWDANPEKRPEMEEVIRLLQALNIKKGRGMLPRKKKSSGCFC

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_9 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	LPERR12G15310	1 retrocopy	retro_lper_9 ,