RetrogeneDB ID: retro_bdis_53

Retrocopy location

• Organism: Purple false brome (Brachypodium distachyon)
• Coordinates: 2:12869587..12870028(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: BRADI5G09340
• Aliases: None
• Description: None

Sequence

>retro_bdis_53
TTCACCTTCAAGGTGATCCACTGGCACTCGCCGTCGGAGCACACCATCGACGGGCGGCGGTTCCCTCTGGAGCTCCACCT
GGTCCACGTCAGCGACAACGGCGACATCGCCGTCATCGGGATCCTCTACAGTCTCGGCGAGCCGGACTCGTTCTACGACC
AGATCGCCGACAAGCTCCGGGAGCTGAGGAGGTCCGAGTCCCACGGCGTGGTGGCAGCTGGCATGGTGGAGCTTCGGTCG
TTGCAGAAGCGGACGGGGAGCTACTTTCGCTACTCAGGCTCGCTAACCACGCCGCCGTGCACGGAGAAGGTGACGTGGAA
CATCCTCGGCAAGGTCAGGGAGATCAGCGCCGAGCAGCTGCAGCTCCTCACCGGCGCGCTGCCGGGGAAGGACAACCGCC
CGGCGCAGCCGCTCAACGGCCGCTCCGTCGCCTTCTACAAC

Alignment

ORF - retro_bdis_53 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.25 %
• Parental protein coverage: 55.2 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YTLKQMHWHSPSEHTINGQRFAMEQHMVHYSDQGDIAVVAILFRLGRPEPFLMQIQDKLSELYVEACSAE
          .T.K..HWHSPSEHTI.G.RF..E.H.VH.SD.GDIAV..IL..LG.P..F..QI.DKL.....E....E
Retrocopy FTFKVIHWHSPSEHTIDGRRFPLELHLVHVSDNGDIAVIGILYSLGEPDSFYDQIADKLR----ELRRSE

Parental  KGAPIPAGVVSLWSLRRRANMYYRYVGSLTTPPCTENIVWTILGRVREMSMEQAAALIAPLEEGYRRNNR
          ......AG.V.L.SL..R...Y.RY.GSLTTPPCTE...W.ILG.VRE.S.EQ...L...L.......NR
Retrocopy SHGVVAAGMVELRSLQKRTGSYFRYSGSLTTPPCTEKVTWNILGKVREISAEQLQLLTGALP---GKDNR

Parental  PTQQLNGRTVQLYN
          P.Q.LNGR.V..YN
Retrocopy PAQPLNGRSVAFYN

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Brachypodium distachyon was not studied using RNA-Seq expression data.

ChIP-Seq

Brachypodium distachyon was not studied using ChIP-Seq data.

EST

Brachypodium distachyon was not studied using EST data.

TSS

Brachypodium distachyon was not studied using FANTOM5 data.

Lab

retro_bdis_53 was not experimentally validated.

Homology

Retrocopy orthology:

Brachypodium distachyon 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
Brachypodium distachyon	BRADI5G09340	1 retrocopy	retro_bdis_53 ,