RetrogeneDB ID: retro_bdis_32

Retrocopy location

• Organism: Purple false brome (Brachypodium distachyon)
• Coordinates: 4:31791369..31792656(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: BRADI4G26710
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: BRADI1G21610
• Aliases: None
• Description: None

Sequence

>retro_bdis_32
ATGGGCTCCGGCCGGCAGCCGGCCGGCAAGGACAAGATGTTGAGCTGGCTCCGCTGCTTCCCGCACGACGGCACGGCCGC
CATGGACTCCGACGACGACCACCACCCCCACATCAGGCAGGGCCCGCCACCGCCGGCCGCACGGCCCGCCGCCGCGAGGA
CGATCACCTCCTCTTTCTCCTTCCGGAAGAAGCCCGCCGCCGCCGTCGACCCCGACTCCGCCGCCGAGCGCCGCAAGCGC
TTCACCCGCACCAACACCACACTCCCCGACCGCCGCCGCCACTCCTCCGTCTCCGCCTCCGCCTCCGACGGCGGCGCCTC
CGACGACTACAACCACAGCGTCGTCTCTGCGCGTTCCTTCTCGTTCGCCGAACTGGCGGCGGCGACCGGCGGGTTCAGCG
ACGACAACCTCCTCGGCTCAGGCGGCTTCGGCCGCGTCTACCGCGGCCGCCTCGCCGCCACCGGCGCCGGAGGAGAAGGG
ACGGCGGTGGCCGTCAAGCGGCTGGACCGCACAGGCCACCAGGGCGACCGTGAGTTCCTGGTGGAGGTGCTCTTCCTCAG
CAGCCTCCTCCTCCGCCACCCGAACCTCGTCGGCCTCCTCGGCTACTGCGCCGACGGCAGCCACCGCCTGCTCGTCTACC
GCCTCATGCCCCTCGGCTCCCTCCACGACCACCTCTTCGTCCCCAGCTCCGGCGCCGCCCTCCCATGGCGCGTCCGCATC
CAAATCGCGCGCGGGGCGGCCAGGGGGCTCGAGTTCCTCCACGAGAAGGCGTCGCCGGCGGTCATCTACCGGGACCTCAA
GCCGTCCAACATCCTCCTCGACTCAGGCTTCCGTGCCAGGCTCTCCGACTTCGGGCTCGCCAAGCTCGCTGGCAACAATG
GCGACGGTGACGACGGCGACCGGAGGATGGGCACGCACGGCTACTGCGCGCCGGAGTACGTCCGATCAGGGCGGCTCACG
GTGAAGTCGGACGTGTACAGCTTCGGCGTCGTTCTCCTCGAGCTCATCACGGGCCGGCACGCCGTTGACGAGGAGAGCAG
CCTTGTCGGCTGGGCCGCGCCGCTGCTCGCCGGCGAGCGCCATGACGAGCTGCTCGACCCGAGGCTCCAGCAAGGAGAGG
CGGTGAACGGGAGAGAGCTCAAGCAGGCGGTGGCGGTAGCCGCCATGTGCTTGCAGGAGGAGGATGCACTCCGGCCAAAC
ATGTCCGACGTCGTCATGGCGCTCAGCTTCCTCACCGGGGCCGGAGAAGAAGACGACGACGAGCAACAAGTAGCCTCAAG
GAGATGA

Alignment

ORF - retro_bdis_32 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.92 %
• Parental protein coverage: 53.57 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GGGAEDLSVSLVGSNLHVFTVAELRAATRDFDDANFLGEGGFGPVYKGFVDGAVKHGLKPQHIAVKLWDP
          GG...D...S.V......F..AEL.AAT..F.D.N.LG.GGFG.VY.G....A...G......AVK..D.
Retrocopy GGASDDYNHSVVSARS--FSFAELAAATGGFSDDNLLGSGGFGRVYRGRL-AATGAGGEGTAVAVKRLDR

Parental  EGAQGHKEWLAEVIFLGQL--RHPNLVKLVGYCCEDEHRLLVYEYMAHGSLENHLF-QHVPATLPWSIRL
          .G.QG..E.L.EV.FL..L..RHPNLV.L.GYC....HRLLVY..M..GSL..HLF.....A.LPW..R.
Retrocopy TGHQGDREFLVEVLFLSSLLLRHPNLVGLLGYCADGSHRLLVYRLMPLGSLHDHLFVPSSGAALPWRVRI

Parental  NIAVGAAKGLAFLHDAEKP-VIYRDFKASNILLDSDDGAKLSDFGLAKDGPEGDDTHVSTRVMGTHGYAA
          .IA.GAA.GL.FLH....P.VIYRD.K.SNILLDS...A.LSDFGLAK......D.....R.MGTHGY.A
Retrocopy QIARGAARGLEFLHEKASPAVIYRDLKPSNILLDSGFRARLSDFGLAKLAGNNGDGDDGDRRMGTHGYCA

Parental  PEYIMTGHLTAKSDVYSFGVVLLEILTGRRSVDK
          PEY...G.LT.KSDVYSFGVVLLE..TGR..VD.
Retrocopy PEYVRSGRLTVKSDVYSFGVVLLELITGRHAVDE

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_32 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	BRADI1G21610	1 retrocopy	retro_bdis_32 ,