RetrogeneDB ID: retro_atau_20

Retrocopy location

• Organism: Tausch goatgrass (Aegilops tauschii)
• Coordinates: Scaffold131071:9909..10797(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: F775_18387
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: F775_11948
• Aliases: None
• Description: None

Sequence

>retro_atau_20
ATGCCCGCCGCCGCGAGGATCTTCCCCGCGCGGATGGCCAGCACCGAGGCCGCCGCCCCGCATGCCAAACAAGAAGATGA
TGCCGCGAGCCCCCAGGCGGCCGCGACTCCAGAGCAGCAGAACAAGAAGCCCGTGGTGAGCTATTGGGGCATCGAGCCTC
GGAAGCTCGTCAAGGATGACGGCACGGAGTGGCCGTGGTTCTGCTTCAGGCCGTGGGACACGTACCGGCCGGACACGTCC
ATCGACGTGACCAAGCACCACGAGCCCAAGGCCCTGGCGGACAAGGTGGCGTACTTCGTTGTCCGATCGCTGCGCGTGCC
CCGGGACCTCTTCTTCCAGCGCCGGCACGCCAGCCACGCGCTGCTGCTGGAGACGGTGGCGGCGGTGCCGCCCATGGTGG
GCGGCGTGCTACTTCACCTGCGCTCGCTCCGCCGCTTCGAGCACAGCGGCGGCTGGATCCGGGCGCTCATGGAGGAGGCC
GAGAACGAACGCATGCACCTCATGACCTTCATGGACGTGACGCAGCCCCGGTGGTGGGAGCGCGCGCTCGTGCTCGCCGC
GCAGGGCGTCTTCTTCAACGCCTACTTCGTCGGCTACCTCATCTCCCCCAAGTTCGCGCACCGCTTCGTCGGGTACCTCG
AGGAGGAGGCCGTGGAGTCCTATACTGAGTACCTCAAGGACCTCGAGGCCGGCTTGATCGAGAACACGCCCGCCCCGGCC
ATCGCCATCGACTACTGGCGCCTCCCCGCCGACGCCAGGCTCAAGGACGTCGTCACCGCCGTGCGCGCCGACGAGGCGCA
TCACCGCGACGCCAACCACTACGCATCGGACATCCATTACCAGGGAATGACGCTGAATCAGACGCCTGCGCCGCTCGGGT
ACCACTGA

Alignment

ORF - retro_atau_20 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.21 %
• Parental protein coverage: 70.41 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KQGEKEAASYWGVAPARLVKEDGTEWKWSCFRPWDAYEADVSIDLTKHHRPATLGDKVALWTVKAMRWPT
          .Q..K...SYWG..P..LVK.DGTEW.W.CFRPWD.Y..D.SID.TKHH.P..L.DKVA...V...R.P.
Retrocopy QQNKKPVVSYWGIEPRKLVKDDGTEWPWFCFRPWDTYRPDTSIDVTKHHEPKALADKVAYFVVRSLRVPR

Parental  DLFFQRRYGCRAMMLETVAAVPGMVAGAVLHLRSLRRFEQSGGWIRALLEEAENERMHLMTFMEVSQPRW
          DLFFQRR....A..LETVAAVP.MV.G..LHLRSLRRFE.SGGWIRAL.EEAENERMHLMTFM.V.QPRW
Retrocopy DLFFQRRHASHALLLETVAAVPPMVGGVLLHLRSLRRFEHSGGWIRALMEEAENERMHLMTFMDVTQPRW

Parental  YERALVVAVQGVFFHAYLATYLASPKVAHRMVGYLEEEAVHSYTEFLRDLEAGKIDGVPAPAIAIDYWRL
          .ERALV.A.QGVFF.AY...YL.SPK.AHR.VGYLEEEAV.SYTE.L.DLEAG.I...PAPAIAIDYWRL
Retrocopy WERALVLAAQGVFFNAYFVGYLISPKFAHRFVGYLEEEAVESYTEYLKDLEAGLIENTPAPAIAIDYWRL

Parental  PAGATLKDVVRVVRADEAHHRDVNHYASDIHCQGHALREVAAPIGYH
          PA.A.LKDVV..VRADEAHHRD.NHYASDIH.QG..L....AP.GYH
Retrocopy PADARLKDVVTAVRADEAHHRDANHYASDIHYQGMTLNQTPAPLGYH

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_20 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_11948	1 retrocopy	retro_atau_20 ,