RetrogeneDB ID: retro_lper_6

Retrocopy location

• Organism: Leersia perrieri
• Coordinates: 9:5828459..5829515(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: LPERR09G03990
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: LPERR05G22140
• Aliases: None
• Description: None

Sequence

>retro_lper_6
ATGGCGGAGGTGTGTTGTGATTCGGCTGTGGTGGTGGGAGCAGAGGCGGAGGCGAGGGCGAGGGCGCGTGCGGGGAGGAG
GCGGCGGGCTACTGGAGTGGAGGGGGCCGCGAGGTGGAAGCCGACGGCGGCGGGGGTGGAAGAGGACGCAGCCGCGGCGG
CGACGAGGAAGAGGCGGGCGAGCGGCGGCGAGGCGGGGGTTGTGGTGGTGGCGAAGCGGCACGGGGCGGCGTCGGTCGCC
GGGAGGCGGAGGGAGATGGAGGACGCCGTTTCGCTGCGCGAGGCGTTCGCCGCCGCGCCGCCGGCGGAATCGGAGCTCGG
CGGCAGGCGCGACTTCTACGGCGTGTTCGATGGCCACGGCTGCTCCCACGTGGCCGACGCGTGCAAGCAGCGGATGCACG
AGCTCGTCGCCGAGGAGATCGCCCCCGCGCCGCCGGCGTCGTCCTCATGGACGGCGGCGATGGAGCGAAGCTTCGCGAGG
ATGGACGCCGAGGTAATCGCCGGCGGGTGCCACGCCGCCGAGAGCGGCCGATGCCGATGCGAGGCGCAGAAGTGCGACCA
CGTGGGGTCCACCGCGGTGGTGGCCGTCGTCGACGACACACGCGTAGTCGTCGCCAACTGCGGCGACAGCCGCGCCGTGC
TGTGCCGCGACGGCGCGCCTGTCCCTCTCTCGACCGACCACAAGCCGGACCGGCCCGACGAGCTCGACCGGATCGAATCG
GCCGGCGGCCGCGTCATCTTCTGGGAGGGGGCACGAGTCCTCGGTGTCCTCGCCATGTCGCGCTCCATCGGCGACGCCTA
CCTGAAGCCGTACGTCTCCGCCGTGCCGGAGGTGACGGTGACGGAAAGATCCGACGGCGACGAGTGCCTCATCCTCGCCA
GCGACGGCCTCTGGGATGTCGTCAGCAACGAGGCCGCCTGCGAGGTGGCGCAGGCCTGCCTCCGACGTGGACGGCAGCGG
TGGTGCGCCGAGGCGGCGGCGCTGCTGACGAAGCTCGCCCTCGCTCGCCGCAGCTCCGATAATATCTCCGTCGTCGTCGT
CGATCTCCGGCGATGA

Alignment

ORF - retro_lper_6 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.66 %
• Parental protein coverage: 65.54 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  HGAVSVIGRRREMEDAVAIERTFMAAADAGGGAIGGEEEEEDFFAVYDGHGGSRVAEECRRRMHVVLAEE
          HGA.SV.GRRREMEDAV.....F.AAA.......GG.....DF..V.DGHG.S.VA..C..RMH...AEE
Retrocopy HGAASVAGRRREMEDAVSLREAF-AAAPPAESELGGRR---DFYGVFDGHGCSHVADACKQRMHELVAEE

Parental  VSRRPAPPSSSGGDVRWKEAMVASFARVDGEVVGSAAAAARVDDGGAKPSGSSFRTVGSTAVVAVVGRRR
          ....PAPP.SS.....W..AM..SFAR.D.EV......AA....G...........VGSTAVVAVV...R
Retrocopy IA--PAPPASSS----WTAAMERSFARMDAEVIAGGCHAA--ESGRCRCEAQKCDHVGSTAVVAVVDDTR

Parental  IVVANCGDSRAVLSRDGVALPLSTDHKPDRPDELERVEAAGGRVINWNGYRVLGVLATSRSIGDYYLKPF
          .VVANCGDSRAVL.RDG...PLSTDHKPDRPDEL.R.E.AGGRVI.W.G.RVLGVLA.SRSIGD.YLKP.
Retrocopy VVVANCGDSRAVLCRDGAPVPLSTDHKPDRPDELDRIESAGGRVIFWEGARVLGVLAMSRSIGDAYLKPY

Parental  VSAEPEVTVIERTEKDEFLILASDGLWDVVSNEVACKIARNCL
          VSA.PEVTV.ER...DE.LILASDGLWDVVSNE.AC..A..CL
Retrocopy VSAVPEVTVTERSDGDECLILASDGLWDVVSNEAACEVAQACL

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_6 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	LPERR05G22140	1 retrocopy	retro_lper_6 ,