RetrogeneDB ID: retro_atau_61

Retrocopy location

• Organism: Tausch goatgrass (Aegilops tauschii)
• Coordinates: Scaffold57457:16810..17482(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: F775_08453
• Aliases: None
• Description: None

Sequence

>retro_atau_61
TGCGACCGGCTGGACCTCCGGGTCCGTCCGGACGACGCGCGGCAGCTCCGCTTCTGGCCGACCCACCCGCCGGACCTCGC
CGAGCTCCTCAAAGAGTTCAGCGTGGAGGGCGAGAAGGTGGCCAAGATCGCCGTCACGGCCATGGCCAGGTGCCTGGGCT
TCGAGGATGGGTTCTTCGTGGACAAGGTCGGCGAGCGGATGCCGTCGTACGCGCGGTTCACCTACTACCCGCCCTGCCCG
TGCCCGGACCTCGTGCACGGGCTCAAGCCCCACACCGACAACTCCGTGGTCACCGTGCTCCTCCTCGACGAGCAAGTCGG
CGGCCTCCAGGTTCTGAAAGATGGCAGCTGGGTCGACGTGCCGGTGCTGGGCGGCGGCCGACACCAGCTGCTGGTCGTGG
TCGGCGACGAGATGGAGATCATGAGCAACGCGGCGTTCAGGGCGCCGGTACACCGGGTGGTGGCGCCGGGGGAGGAGGCG
GAGCGGGTGTCGCTGGCGGAGTTCTACCAGCCGGAGCCGGACAAGGTGCTCGAGCCGTCGCCCGAGCTGGTCGACGGGGA
GCGGCCGGCGATGTACAAGAAGCTCCAGGCCAAGGTCTTCGCCGACGGCTTCTGGGACGCGTTCGCGCTCGGGGAACGCA
CCATCGACTTCCTCAAGGTCAAGGTCGACGCC

Alignment

ORF - retro_atau_61 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.93 %
• Parental protein coverage: 58.97 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  CDRLWLQLQPEDERRLQFW---PQNLRDLLHEYTLESGRVTMDVLKAMAKLLNQEEGFFINMVGERFKSY
          CDRL.L...P.D.R.L.FW...P..L..LL.E...E...V......AMA..L..E.GFF...VGER..SY
Retrocopy CDRLDLRVRPDDARQLRFWPTHPPDLAELLKEFSVEGEKVAKIAVTAMARCLGFEDGFFVDKVGERMPSY

Parental  SRFTYYPPCPRPDLVNGLKPHTDNSVITLLLMDKDVGGLQVLKDGHWVDVPVLG---NDLLVVVGKGMEI
          .RFTYYPPCP.PDLV.GLKPHTDNSV.T.LL.D..VGGLQVLKDG.WVDVPVLG.....LLVVVG..MEI
Retrocopy ARFTYYPPCPCPDLVHGLKPHTDNSVVTVLLLDEQVGGLQVLKDGSWVDVPVLGGGRHQLLVVVGDEMEI

Parental  VSNAIFKAPWHRVVTSADK-ERLSLAMFYQPEPERIIGPPEVLVHEKRPAMFKKCLVQTLADGYWDAFAA
          .SNA.F.AP.HRVV......ER.SLA.FYQPEP.....P...LV...RPAM.KK......ADG.WDAFA.
Retrocopy MSNAAFRAPVHRVVAPGEEAERVSLAEFYQPEPDKVLEPSPELVDGERPAMYKKLQAKVFADGFWDAFAL

Parental  GDRTVDFLNVRINA
          G.RT.DFL.V...A
Retrocopy GERTIDFLKVKVDA

Legend:

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

Expression

RNA-Seq

Aegilops tauschii was not studied using RNA-Seq expression data.

ChIP-Seq

Aegilops tauschii was not studied using ChIP-Seq data.

EST

Aegilops tauschii was not studied using EST data.

TSS

Aegilops tauschii was not studied using FANTOM5 data.

Lab

retro_atau_61 was not experimentally validated.

Homology

Retrocopy orthology:

Aegilops tauschii 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
Aegilops tauschii	F775_08453	1 retrocopy	retro_atau_61 ,
Hordeum vulgare	MLOC_36995	1 retrocopy	retro_hvul_91,