RetrogeneDB ID: retro_atau_52

Retrocopy location

• Organism: Tausch goatgrass (Aegilops tauschii)
• Coordinates: Scaffold40215:6789..7248(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: F775_05185
• Aliases: None
• Description: None

Sequence

>retro_atau_52
CCTAATTCATCATTGTAATGGATGGTGTCTGACATACATCTACCCATGTTGAAGACTTTCAGTGCCTTGATCTATTATAT
TTCTCTTAGCTCATACTTGTGCTTTTCAGATTGTCCTGTGAACTTCGAGTTCCAAAACTACACCGTCATCACAAGCAGGT
GCAAAGGGCCAAAATATCCTCCTAAAGACTGCTGTGATTCTTTCAAGGAATTTGCATGCCCATTTAATAACTACATCAAT
GATGAAAGCAATGACTGTGCATCCACAATGTTCAGCTACATCAACCTCTATGGCAAGTACCCACCAGGCCTGTTTGCCCA
CGAGTGCCGAGAAGGCAAGCTAGGTCTTTCTTGCGAAGGCGTCCCCCAGAAAGACGTCGTTAAAAGTGGTGTCCAAAGGG
CTCGAAGCAGCTCGCTTGCTTTGATTACTCTCATGTGTGGACTAGTAGCATTGTTCTTC

Alignment

ORF - retro_atau_52 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.28 %
• Parental protein coverage: 92.86 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PAAVLTWLASASASPFLSDRVFQASTGSTGRSLLQTKRDCPIDFEYQNYTIITSRCKGPQSPPTECCDAF
          P...L.W..S....P.L....F.A.......S......DCP..FE.QNYT.ITSRCKGP..PP..CCD.F
Retrocopy PNSSL*WMVSDIHLPML--KTFSALIYYISLSSYLCFSDCPVNFEFQNYTVITSRCKGPKYPPKDCCDSF

Parental  KKFACPFAVYINNQSTNCADTMLTYINGRGSYPAGMFAAECLKGKQGVSCEGIPGIDTGVPSGGRRAHGI
          K.FACPF..YIN..S..CA.TM..YIN..G.YP.G.FA.EC..GK.G.SCEG.P..D..V.SG..RA...
Retrocopy KEFACPFNNYINDESNDCASTMFSYINLYGKYPPGLFAHECREGKLGLSCEGVPQKDV-VKSGVQRARSS

Parental  SGRLIALLCGLGGLLF
          S..LI.L.CGL..L.F
Retrocopy SLALITLMCGLVALFF

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_52 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 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Aegilops tauschii	F775_05185	1 retrocopy	retro_atau_52 ,