RetrogeneDB ID: retro_bdis_22

Retrocopy location

• Organism: Purple false brome (Brachypodium distachyon)
• Coordinates: 5:1245654..1246683(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: BRADI5G01327
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: BRADI1G28967
• Aliases: None
• Description: None

Sequence

>retro_bdis_22
ATGCCGTTCCCGGACAACTACCCGGAATACCCCGACCGCGCCCAGTTCATCTCCTACCTCGAGACCTACGCGGCCACCTT
CGACATCAAGCCCGAGTTCGGCGTCACGGTCCAGTCCGCCAAGTACGACGAGGACACCGGCGTCTGGCGCGTGCTCGCCT
CGCCGGCGTCCGGGAAGTCCACCGTCGAGTACCTCGGCCGCTGGCTCGTGGTCGCCACGGGGGAGAACGCCGAGAACGTG
GTTCCCGACATCCCGGGGCTCGACTCCTTTTCCGGGGAGATCACCCACGTCTCCGACTACAAGTCCGGGGCGACGTACCG
GGGCAAGAAGGTGCTCGTGGTCGGCTGCGGGAACTCGGGTATGGAGGTCTCCCTCGACCTCTGCGACCACGGCGCGTCCC
CGTCCATGGTTGTCCGTGACGCCGTCCACGTCCTTCCCAGGGAATTCCTGGGCAAATCGACGTTCGAGCTCGCGACTTTC
CTCATGGCGTGGTGCGTCCCGCTGTGGTTCGTCGACAAGGTCATGGTGTTCCTCTCGTGGCTCGTGCTGGGAAACCTTGC
ACGCTTCGGCATTCGGCGCCCGGCCGTCGGCCCGCTGACGCTGAAGAACACGCACGGCAGGACGCCCGTGCTCGACACGG
GCGCCATGGCCAGGATCAAATCCGGCGACATCACCGTCGTGCCAGGGGTGGCCAGGTTCACCAAGGCCGGCGCCGAGCTC
AGCAACGGCACGGAGATTGACGTCGACGCCGTGGTCATGGCCACCGGCTACAAGAGCAATGTTCCCAGGTGGCTGGAGAG
CGGCTTGTTCGGCAAGGACGGATATCCGACCACCGCGTTTCCCAACGGGTGGAAGCTCGGTGAATCCGGGCTTTACTCCG
TTGGGTTCACCCGCCGTGGACTCTCCGGCGCCTCTGCAGATGCCGTTCGCATCGCCGGTGATATCGGGAAGGTGTGGAAG
GAAGAGAACAAGCCGACGCAGAGAGCCGCCGGAGCCGGCCACCGCCGGTCGATCTCAGTCATCTTCTAA

Alignment

ORF - retro_bdis_22 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.58 %
• Parental protein coverage: 81. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPFPDHYPEYPDKAQFVAYLEAYAARFGVRPRFNQSVTSARYDSAAGLWRVHAQAHDEDGVVTEYISRWL
          MPFPD.YPEYPD.AQF..YLE.YAA.F...P.F...V.SA.YD...G.WRV.A........V.EY..RWL
Retrocopy MPFPDNYPEYPDRAQFISYLETYAATFDIKPEFGVTVQSAKYDEDTGVWRVLASPASGKSTV-EYLGRWL

Parental  VVATGENAERVLPEIHGMEDFDGPVSHVSEYKSGAPYRGKRVLVVGCGNSGMEVSLDLCHHNALPAMVVR
          VVATGENAE.V.P.I.G...F.G...HVS.YKSGA.YRGK.VLVVGCGNSGMEVSLDLC.H.A.P.MVVR
Retrocopy VVATGENAENVVPDIPGLDSFSGEITHVSDYKSGATYRGKKVLVVGCGNSGMEVSLDLCDHGASPSMVVR

Parental  DSKVHVLPREMLGVATFSVAVFLLRF-LPLWLVDRILVVLAWMFLGNLEKLGIRRPSGAGPLELKNARGR
          D..VHVLPRE.LG..TF..A.FL.....PLW.VD...V.L.W..LGNL...GIRRP...GPL.LKN..GR
Retrocopy DA-VHVLPREFLGKSTFELATFLMAWCVPLWFVDKVMVFLSWLVLGNLARFGIRRPA-VGPLTLKNTHGR

Parental  TPVLDIGALARIRSGDIEVVPGIRRLFRGGAELVDGCRVAADAVIMATGYHSNVPQWLKGSDFFTQEGYP
          TPVLD.GA.ARI.SGDI.VVPG..R....GAEL..G.....DAV.MATGY.SNVP.WL..S..F...GYP
Retrocopy TPVLDTGAMARIKSGDITVVPGVARFTKAGAELSNGTEIDVDAVVMATGYKSNVPRWLE-SGLFGKDGYP

Parental  RVPFPDGWK-GESGLYSVGFTRRGLSGVASDAVKVAQDIARAWKHQ
          ...FP.GWK.GESGLYSVGFTRRGLSG...DAV..A.DI...WK..
Retrocopy TTAFPNGWKLGESGLYSVGFTRRGLSGASADAVRIAGDIGKVWKEE

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_22 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Brachypodium distachyon	BRADI1G28967	1 retrocopy	retro_bdis_22 ,
Brachypodium distachyon	BRADI2G10302	1 retrocopy	retro_bdis_48,