RetrogeneDB ID: retro_lper_32

Retrocopy location

• Organism: Leersia perrieri
• Coordinates: 2:4194991..4195557(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: LPERR02G06160
• Aliases: None
• Description: None

Sequence

>retro_lper_32
TACCATTATAATTGCCTACAGTCTACACTGACCCTGATCTGTCTCCCATTTGATGCATGTCAGCTCGAATGTATGGAATC
TGATCCAACCCTGACATTCACCATCGACCCCAACAACAAGCCAGAGCCACAGATTTCAGGGCCAATTAACGGCGAAGAGG
AAGACGATGACGACAATAACAACGATGAACTGTACTGACTCCCAGGCAAGAAGATGAATAATGCTGAGAGCAGCAGCAGG
TGGTGGTAAAGCCATCTGCAACAGCATCAAGGCCTAAGAGATCAAGAAAATGCCAGCAGAAGGTGATCACTACTACTGAT
GGTGGTGGTGACAACAAAGGCGCCGGCGTCGACGACGGCATGGACGAAAAAGAAAGGGAAGTGGCCGAGACCATCACATT
GGTCTCCGGCAAAATTGCACGCCAGATGCCGGCCGCCTGGGCTACCGACCCCAACAGCTTCCGCCGCCGTTCTACTGATC
GCATGCATCGGCGACGTCTGAATTAACCTATCTGCATGCGATCGAGGTCTGAATCACCAAGATCTTTAATTTCATTTTTA
AATGCA

Alignment

ORF - retro_lper_32 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.89 %
• Parental protein coverage: 57.27 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  YGFGALQPCLLWTINP---AQLKCLESDPTQTFAVDPNNKPEPQISGPIEGEDEEDDDDNEDELFNLPGK
          Y....LQ..L.....P....QL.C.ESDPT.TF..DPNNKPEPQISGPI.GE.E.DDD.N.DEL..LPGK
Retrocopy YHYNCLQSTLTLICLPFDACQLECMESDPTLTFTIDPNNKPEPQISGPINGEEEDDDDNNNDELY*LPGK

Parental  KMNNAEISSK-QQVVAQPSASASRAKRSRERQQKVITTTDGGGDNKGSGVVDHGMGENEMEMAETIILFS
          KMNNAE.SS....V.....AS.....R.......VITTTDGGGDNKG.G.VD.GM.E.E.E.AETI.L.S
Retrocopy KMNNAESSSR<VVVKPSATASRPKRSRKCQQK--VITTTDGGGDNKGAG-VDDGMDEKEREVAETITLVS

Parental  EKTARNLPAAWAIDPNNFRRRTRKGVHRAPQRSPVMAGGRYGPAWQLVPLLGA
          .K.AR..PAAWA.DPN.FRRR.....HR.....P.....R......L...L.A
Retrocopy GKIARQMPAAWATDPNSFRRRSTDRMHRRRLN*PICMRSRSESPRSLISFLNA

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_32 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Leersia perrieri	LPERR02G06160	1 retrocopy	retro_lper_32 ,