RetrogeneDB ID: retro_bdis_15

Retrocopy location

• Organism: Purple false brome (Brachypodium distachyon)
• Coordinates: 1:767766..768810(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: BRADI1G01150
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: BRADI3G34227
• Aliases: None
• Description: None

Sequence

>retro_bdis_15
ATGGCGGCGTCGGTGACGACGACGTTGCTGCTCTTAGCAGCGACCATGAGCGCGGCCGTGAGCTGCGTCGCGGCGGCATT
CGTCGACGCCGGCGTCCCGGCCGTGTCCTTCTCCTCCGGCTTCACCATGCTATTCGGCGAGGCCAACATGGCCCGCTCCT
TCTCCTCCGGCTCCGGCGCCGACGACGAACTCATCAGCATCACGCTCGACCGCCGCTCCGGCTCGGGCTTCATCTCGAAA
CACTACTACCACCACGGCCACTTCAGCGCCGACATCAAGCTCCCCTCCGGCCACACCGCCGGCGTGGTGGTCGCCTTCTA
CCTCTCCAACGCCGACGCGTTCCCGGACACCCACGACGAGCTCGACTTCGAGTTCCTCGGCGACCGCGCCGGCCGGCCAT
GGCGGCTCCAAACCAACGTCTACGGCAACGGCAGCACGTCCCGCGGCCGCGAGGAGCGCTACCTCCTGCCATTCGACCCC
GCCGCCGCCGCTCACAATTTCGCCGTCTCATGGTCCCCACGCGCCGTCGTCTTCTCCGTCGACGGCGTCCCCATCCGCGA
GGTCCTCCGCCATGGAAGCAATGGCAATGGCGACATGGGCGGGGATTATCCATCGAAGCCCATGGCGGTGTATGCGACGA
TCTGGGACGGGTCGACATGGGCCACGGAGAACGGGAAGTACAAGGTGGGCTACGAGCACGGGCCGTTCACGGCCCAGTTC
TCGCGGCTCGTGCTCCATGGCTGCGCCGCCGACGGCGGCGGGTGCGCGGCGATGGCGGGGCCGGAGACGGAGACGATGAC
GGTGGCGCCGTGGGAGCGGGCGGCGATGCGGCGGTGGAGGCGGCGGCAGACGCTGTACACGGTGTGCTACGACGAGGACC
GGTACCCGGCGGCGGCGGGGAAGGCGCTGCCGGAGTGCGAGACGAACGCGGCGGAGCGGAGGATGTTCGAGCGGTGGGGC
GAGTCCAAGCGGCTCCGCCAGCTCCAGCTCCAGGGTCAGGGCCAGGCGCCGCCGTTGTTGGTCTCCTTGCAGCAGGCCGA
CTGA

Alignment

ORF - retro_bdis_15 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.48 %
• Parental protein coverage: 91.82 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ATSIRALVILAALAVLGAVAAAAAALDTSPVAFDAGFAPLFGGDNLVRSPDGRSVQLKLDRYTGSGFVSK
          AT...A....AA..V...V.A.............A..A..F.........D.......LDR..GSGF.SK
Retrocopy ATMSAAVSCVAAAFVDAGVPAVSFSSGFTMLFGEANMARSFSSGS---GADDELISITLDRRSGSGFISK

Parental  SAYRHGFFSASIKLPEGHTAGVVVAFYLSNGDEYPANHDEVDVELLGNRRGHGWRLQTNLYGNGSTGRGR
          ..Y.HG.FSA.IKLP.GHTAGVVVAFYLSN.D..P..HDE.D.E.LG.R.G..WRLQTN.YGNGST.RGR
Retrocopy HYYHHGHFSADIKLPSGHTAGVVVAFYLSNADAFPDTHDELDFEFLGDRAGRPWRLQTNVYGNGSTSRGR

Parental  EERYLLPSPQSPQPQQTHKYGIAWTPNAVIFYLDSVPIREVVRVPAMG-GD----FPSKPMSVYATIWDG
          EERYLL..P..P.....H.....W.P.AV.F..D.VPIREV.R....G.GD.....PSKPM.VYATIWDG
Retrocopy EERYLL--PFDPAAA-AHNFAVSWSPRAVVFSVDGVPIREVLRHGSNGNGDMGGDYPSKPMAVYATIWDG

Parental  SAWATDGGRHKVDYAHAPFTAVFSDLVLAG----GHGGVEVLTAEAAVMT--PAKRAAMRRFRGRHLTYT
          S.WAT..G..KV.Y.H.PFTA.FS.LVL.G....G.G.......E...MT..P..RAAMRR.R.R...YT
Retrocopy STWATENGKYKVGYEHGPFTAQFSRLVLHGCAADGGGCAAMAGPETETMTVAPWERAAMRRWRRRQTLYT

Parental  ACRDRVRYKISAG-VLPECVDDDGDEGLGFHEWGE
          .C.D..RY...AG..LPEC......E...F..WGE
Retrocopy VCYDEDRYPAAAGKALPEC-ETNAAERRMFERWGE

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_15 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	BRADI3G34227	1 retrocopy	retro_bdis_15 ,