RetrogeneDB ID: retro_atau_68

Retrocopy location

• Organism: Tausch goatgrass (Aegilops tauschii)
• Coordinates: Scaffold8606:42517..42955(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: F775_32107
• Aliases: None
• Description: None

Sequence

>retro_atau_68
CCCAAGAAGACACCACCACCACCCGCGCCGATGGCCCGCACAAAGCAGACGGCGCGCAAGTCCACCGGCGGCAAGGCGCC
GAGGAAGCAGCTGGCGACCAAGGCGGCGCGCAAGGCCGCCCCGGCCACCGGCGGCGGGAAGAAGCCCCCCCCCCTCCCCC
CCCGGACCGTCGCCCTCCGCGAGATCCGCAAGTACCAGAAGAGCACGGAGCTGCTCATCCGCAAGCTCCCCTTCCAGCGC
CTCGTCCGGGAGATCGCGCAGGCCTTCAAGACCGCCCTCCGCTTCCAGAGCTCCGCCGTCTCCGCGCTGCAGGAGGCCGC
CGAGGCGTACCTGGTGGGCATGTTCGAGGACACCAACCTGTGCGCCATCCACGCCAAGCGCGTCACCATCATGCCCAAGG
ACATACAGCTCGCCCGCCGCATCCGCGGGGAGCGCGCC

Alignment

ORF - retro_atau_68 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.25 %
• Parental protein coverage: 97.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PLPSKPRLLLMARTKQTARKSTGGKAPRKQLATKAARKSAPTTGGVKKPHRYRPGTVALREIRKYQKSTE
          P....P....MARTKQTARKSTGGKAPRKQLATKAARK.AP.TGG.KK.......TVALREIRKYQKSTE
Retrocopy PKKTPPPPAPMARTKQTARKSTGGKAPRKQLATKAARKAAPATGGGKKXXXXXXXTVALREIRKYQKSTE

Parental  LLIRKLPFQRLVREIAQDFKTDLRFQSHAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR
          LLIRKLPFQRLVREIAQ.FKT.LRFQS.AV.ALQEAAEAYLVG.FEDTNLCAIHAKRVTIMPKDIQLARR
Retrocopy LLIRKLPFQRLVREIAQAFKTALRFQSSAVSALQEAAEAYLVGMFEDTNLCAIHAKRVTIMPKDIQLARR

Parental  IRGERA
          IRGERA
Retrocopy IRGERA

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_68 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 1 parental gene, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Aegilops tauschii	F775_32107	11 retrocopies	retro_atau_26, retro_atau_30, retro_atau_41, retro_atau_42, retro_atau_49, retro_atau_53, retro_atau_58, retro_atau_65, retro_atau_66, retro_atau_67, retro_atau_68 ,