RetrogeneDB ID: retro_atau_14

Retrocopy location

• Organism: Tausch goatgrass (Aegilops tauschii)
• Coordinates: Scaffold4586:71541..71997(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: F775_32637
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: F775_32715
• Aliases: None
• Description: None

Sequence

>retro_atau_14
ATGGGACGCATGCACAGCAACGGGAAGGGCATGTCGTCCTCGGTGATCCCCTACAAGCGGGAGGCCCCGGCCTGGGTCAA
GACGTCCGCGCCGGACGTGGAGGAGATCATCGTCCGCGCCGCCAAGAAGGGTCAGCTGCCGTCGCAGATCGGCGCCCTGC
TCCGCGACGGCTACGGCATCCCGCTGTCCAAGGCCGTCACCGGCGCCAAGATCGTGCGCCTCCTCAAGGCCCGCGGGCTG
GCGCCGGAGATGCCCGAGGACCTCTACTTCCTCATCAAGAAGGCCGTCGCGATCAGGAAGCACCTGGAGAGGAACAGGTC
GGACGTGGACGCCAAGTTCCGCCTCATCCTCGTCGAGAGCCGGGTCCACCGCCTCACCCGCTACTACCGCCTCACCAAGA
AGATGCCCGCCGCCTGGAAGTACGAGTCCACCACCGCGAGCACTCTCGTCGCCTGA

Alignment

ORF - retro_atau_14 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.18 %
• Parental protein coverage: 75. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGRMHSRGKGISSSALPYKRTPPSWVKTAVADVDELITKAAKKGQMPSQIGVLLRDQHGIPLVKSVTGSK
          MGRMHS.GKG.SSS..PYKR..P.WVKT...DV.E.I..AAKKGQ.PSQIG.LLRD..GIPL.K.VTG.K
Retrocopy MGRMHSNGKGMSSSVIPYKREAPAWVKTSAPDVEEIIVRAAKKGQLPSQIGALLRDGYGIPLSKAVTGAK

Parental  ILRILKAHGLAPEIPEDLYFLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKRTKKLPPTWK
          I.R.LKA.GLAPE.PEDLYFLIKKAVAIRKHLERNR.D.D.KFRLILVESR.HRL.RYY..TKK.P..WK
Retrocopy IVRLLKARGLAPEMPEDLYFLIKKAVAIRKHLERNRSDVDAKFRLILVESRVHRLTRYYRLTKKMPAAWK

Parental  Y
          Y
Retrocopy Y

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_14 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_32715	1 retrocopy	retro_atau_14 ,
Hordeum vulgare	MLOC_76906	1 retrocopy	retro_hvul_2,