RetrogeneDB ID: retro_lper_28

Retrocopy location

• Organism: Leersia perrieri
• Coordinates: 8:20090972..20092103(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: LPERR08G20690
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: LPERR02G30690
• Aliases: None
• Description: None

Sequence

>retro_lper_28
ATGGGGATGATGACGCTGCGCCGCGACGTCCATCGATATGGCATGGGGATGGTGGTGATGGCGATGATGGTCTGCGGCGG
CGAGGCGGCGAACGCAGGAGCTCCGCGTGCATTCTTTGTGTTCGGCGACTCACTTGTGGACAGCGGCAACAACAACTACC
TCTTCACGACGGCGCGTGCCGACTCGCCACCCTACGGCCTCGACTACCCAACCCACCGACCCACGGGCCGCTTCTCCAAT
GGCCTCAACGTGCCCGACATCATCAGCGAGTACCTCGGCGCCGACCCCGTGCTTCCCTACCTCAGCCCCCACCTCGACGG
CGCCAAGCTTCTGGGCGGCGCCAACTTCGCATCCGCCGGCGTTGGCATCCTCAACGACACCGGCATCCAGTTCGCCAACA
TCATCCGCATCGAGAAGCAGCTGCGCTACTTCGCGCAGTACCAGGACAGGGTGCGGTGGCTGGTCGGCGGCGAGGCGACA
CGGAGGCTGGTGGAGGGCGCGCTGGTGCTCATCACGCTGGGAGGCAACGACTTCGTGAACAACTACTACCTTGTGCCCTT
CTCGGCGAGGTCACGGGAGTTCTCGCTGCCGGACTACGTGCGCTACATCATCGGCGAGTACAGCAAGGTGCTCAGGGAGC
TCTACGACCTGGGCGCCCGCCGCGTCCTCGTCACCGGCTCAGGCCCGCTCGGCTGCGCGCCGGCCGAGCTCGCCACACGC
AGCGCCACCGGCCAATGCGACGCCGAGCTGCAGCGCGCCGCCGCGCTCTACAACCCGCAGCTGGTGCGGATGACGCGGGA
CCTCAACGCGGAGCTCGGCGCCGACGTGTTCGTCGCCGTCAACGCGTACAGGATGCACATGGACTTCGTGTCCGACCCGG
CGGCGTACGGCTTCGCCACCTCCAAGGTGGCGTGCTGCGGCCAGGGGCCGTACAACGGCGTGGGGCTGTGCACCGCGCGG
TCCAGCATCTGCCCCGACCGATCGCTCTACGTCTTCTGGGACAATTTCCACCCTACCGAGAGGGCCAACCGCATCATCGT
CAGCCAGTTCATGTCAGGCTCCCCCGACTACATGCACCCCTTCAACCTCTCCACCATCCTCGCCATGGACGCAGCAGCAA
CAGAGCCATGA

Alignment

ORF - retro_lper_28 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.77 %
• Parental protein coverage: 94.15 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LLSVAVICLGFFPAATHAARAFFVFGDSLVDNGNNNYLITSARADSPPYGIDTPDHRATGRFSNGKNMPD
          ....A....G...A...A.RAFFVFGDSLVD.GNNNYL.T.ARADSPPYG.D.P.HR.TGRFSNG.N.PD
Retrocopy MVVMAMMVCGGEAANAGAPRAFFVFGDSLVDSGNNNYLFTTARADSPPYGLDYPTHRPTGRFSNGLNVPD

Parental  IISEHLGAEPVLPYLSPELDGEKLLVGANFASAGIGILNDTGIQFANIIHIEKQIRYFEQYQDRLRKVIG
          IISE.LGA.PVLPYLSP.LDG.KLL.GANFASAG.GILNDTGIQFANII.IEKQ.RYF.QYQDR.R...G
Retrocopy IISEYLGADPVLPYLSPHLDGAKLLGGANFASAGVGILNDTGIQFANIIRIEKQLRYFAQYQDRVRWLVG

Parental  DEEAKRLVAESLVLITVGGNDFVNNYYLIPYSPRSREFSLPDYIRYILSEYKQVLMHIYQLGARRVLVTG
          .E...RLV...LVLIT.GGNDFVNNYYL.P.S.RSREFSLPDY.RYI..EY..VL...Y.LGARRVLVTG
Retrocopy GEATRRLVEGALVLITLGGNDFVNNYYLVPFSARSREFSLPDYVRYIIGEYSKVLRELYDLGARRVLVTG

Parental  VGPIGCVPAELALHSLDGTCDTELQRAADAYNPQLVEMLAELNREVAGDVFIGVNTKRMHDDFIDDPTAH
          .GP.GC.PAELA..S..G.CD.ELQRAA..YNPQLV.M...LN.E...DVF..VN..RMH.DF..DP.A.
Retrocopy SGPLGCAPAELATRSATGQCDAELQRAAALYNPQLVRMTRDLNAELGADVFVAVNAYRMHMDFVSDPAAY

Parental  GFATSTEACCGQGRFNGMGLCTLVSTLCADRDAYVFWDAFHPTERANRLIVQQFMEGSLDYITPMNLSTI
          GFATS..ACCGQG..NG.GLCT..S..C.DR..YVFWD.FHPTERANR.IV.QFM.GS.DY..P.NLSTI
Retrocopy GFATSKVACCGQGPYNGVGLCTARSSICPDRSLYVFWDNFHPTERANRIIVSQFMSGSPDYMHPFNLSTI

Parental  LKVD
          L..D
Retrocopy LAMD

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_28 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	LPERR02G30690	1 retrocopy	retro_lper_28 ,