RetrogeneDB ID: retro_bdis_7

Retrocopy location

• Organism: Purple false brome (Brachypodium distachyon)
• Coordinates: 3:8123983..8124769(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: BRADI3G09930
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: BRADI3G09950
• Aliases: None
• Description: None

Sequence

>retro_bdis_7
ATGGCTGGAGCTTATTACTCCTACGTGCTAGCCCTCGTCTGCGCGCTTCTGTCCATGGCCACCGGCGGCGGCGCCCTGGA
GCCGAGCGGGTGGCTTCGGGCGCACGCGACCTTCTACGGCGGCAGCGACGCCGGGGGCACCATGGGCGGCGCCTGCGGGT
ACGGCAACCTCTACGCGCAGGGCTACGGCACGCGCACGACGGCGCTAAGCACAGTCCTGTTCGACCGCGGCCTGTCCTGC
GGGCAGTGCTACAAGCTCGTCTGCGACCGCAAGACGGACCCTTCCTGGTGCAAACCCGGGGTGTCCGTGACAGTCACGGC
CACAAACTTCTGCCCGCCCAACTGGGACCTGCCCAGCGACAAGGGCGGCTGGTGCAACCCGCCAAGGCCGCACTTCGACA
TGGCGCAGCCGGCATGGGAGAAGATCGGCGTCTACAGGGGCGGCATCATCCCCGTCATCTACCAGCGTGTCCCATGCGTC
AAGAAGGGCGGGGTCAGGTTTACGATCGCCGGGCACGACTACTTCGAGCTCGTGCTGCTCACAAATGTCGCCGCGGCGGG
GTCGGTCAAGGCCATGGACGTGAAGGGGTCCAAGGCCGGGAGCAACGACTGGATGCCCATGGCGCATAACTGGGGCGCGA
ACTGGCATTCGCTGAAGTATCTCAATGGGCAGGGGTTGTCTTTCAGGGTGACCATCACTGATGGGCAGACGATTGTGTTT
GCTGATGTCGTGCCGCCTAGCTGGAAGTTCGGCCAGACGTTTGCCAGCAACCTGCAGTTCAAGTGA

Alignment

ORF - retro_bdis_7 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.68 %
• Parental protein coverage: 88.17 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PVVWQRAHATFYGGADASGTMGGACGYGNLYSEGYGTRTAALSTVLFNDGAACGQCYKIACDRKVDPRWC
          P..W.RAHATFYGG.DA.GTMGGACGYGNLY..GYGTRT.ALSTVLF..G..CGQCYK..CDRK.DP.WC
Retrocopy PSGWLRAHATFYGGSDAGGTMGGACGYGNLYAQGYGTRTTALSTVLFDRGLSCGQCYKLVCDRKTDPSWC

Parental  KPGVTVTVTATNLCPPNNALPNDNGGWCNIPRPHFDMAQPAWEKIGVYRGGIIPVMYQRVPCVKKGGVRF
          KPGV.VTVTATN.CPPN..LP.D.GGWCN.PRPHFDMAQPAWEKIGVYRGGIIPV.YQRVPCVKKGGVRF
Retrocopy KPGVSVTVTATNFCPPNWDLPSDKGGWCNPPRPHFDMAQPAWEKIGVYRGGIIPVIYQRVPCVKKGGVRF

Parental  KINGHDYFNLVLVTNVAAIGSIKSMDVKSS--DSKDWAPMARNWGANWHSLAYLSGKMLSFRLTNTDGQT
          .I.GHDYF.LVL.TNVAA.GS.K.MDVK.S...S.DW.PMA.NWGANWHSL.YL.G..LSFR.T.TDGQT
Retrocopy TIAGHDYFELVLLTNVAAAGSVKAMDVKGSKAGSNDWMPMAHNWGANWHSLKYLNGQGLSFRVTITDGQT

Parental  LEFNNIVPSGWKFGQTFASKLQF
          ..F...VP..WKFGQTFAS.LQF
Retrocopy IVFADVVPPSWKFGQTFASNLQF

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_7 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	BRADI3G09950	1 retrocopy	retro_bdis_7 ,