RetrogeneDB ID: retro_atau_15

Retrocopy location

• Organism: Tausch goatgrass (Aegilops tauschii)
• Coordinates: Scaffold8260:108859..109945(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: F775_18581
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: F775_17082
• Aliases: None
• Description: None

Sequence

>retro_atau_15
ATGTGCAGCCCGAGAAAGCAGCACGGCGGTGGCGGCCGCAGCCACCCCGCCTCGCTCCTCCTCGGGGCTCTCCTCCCCAC
GCTCCTGCTCTTCTTCCTCGCCTCCGACCGGGTCGGCGAGCAGCTGGCTAGCATATCCACCTACACCTTGGGGAATAACA
ATGGATCGTCATCAGCTCATGAGCAGATGACCCATGATGCCAACCTCACGGACACGGAGAGGGTATTCCCTGGGCTGGCG
GAGCTGCTGCCGAGGGTGGCCACGGACGACGGGACAGTGATCATCACGTCGGTGAACGAGGCGTGGTCGCGGCCGGGGTC
CCTCCTGGACCTCTTCCGCGCGGGGTTCAGGAACGGCGAGGGGATCGCGCACCTCCTCAACCACACCCTCATCGTGGCCG
TCGACCCCGGCGCGCTGGCGCACTGCGAGGCGGTGCACCCGCACTGCTACCTCCTGGAGGTGACCTCCGCCAACGTCAGA
TCCGCCAACCGCTTTATGAGCAAGAGCTACTTCGAGCTGGTGTGGGCCAAGCTGGAGCTCCAGCAGCGCGTCCTCCAGCT
CGGCTACAGCTACCTCTTCACGGACGTGGACATCATGTGGCTGCGCAACCCGTTCCGGCACATCAGCCTCTACGCCGACA
TGGCCGTCTCCACCGACCGGTTCAACGGCGACGCGGAGGCCCTGACGAACGCGCCCAACACGGGGTTTTACTACGTCAAG
TCCACCAACCGCACGGTGGAGATGGTGAGGCGGTGGCGGGCGGCGAGGTCGCGGTTCCCGCCGACCCACGACCAGGCGGT
GTTCGACGAGATCAAGGGCGAGCTGGCGGGCGGCGAGCTGCGGATCAGGTTCGTGTTCCTGGAGACGGCGCTCTTCGACG
GCTTCTGCCAGCTCCACGGCGAGATGGACCGGGTGTGCACCATGCACGCCAACTGCTGCATCGGACTCGAGAACAAGGTG
CATGACCTCACCAACATGGCCGCCGACTGGAAGAACTACACGAGCCTAGCGCCGGCGGAGAGAAGGGGCAGCGGGCGTAG
GTGGACGGCCCCCGACCAGTGCGAGGACTCCATGAGGCAGCGCTGA

Alignment

ORF - retro_atau_15 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.86 %
• Parental protein coverage: 98.62 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KSKQRNGGVSHSASFLLGALLPTLLLLLLASDRVEERLTGIFISSLGNGSPHQMISHANLSSAEKDMQEE
          ......GG.SH.AS.LLGALLPTLLL..LASDRV.E.L..I....LGN..............A.....E.
Retrocopy RKQHGGGGRSHPASLLLGALLPTLLLFFLASDRVGEQLASISTYTLGNNNGSSSAHEQMTHDANLTDTER

Parental  RFPGLAELLPKVATDDGTVIVTSVNEAWAAPGSLLDLFRESFNNGEGIAHLLNHTLIVAVDPGAMSHCEA
          .FPGLAELLP.VATDDGTVI.TSVNEAW..PGSLLDLFR..F.NGEGIAHLLNHTLIVAVDPGA..HCEA
Retrocopy VFPGLAELLPRVATDDGTVIITSVNEAWSRPGSLLDLFRAGFRNGEGIAHLLNHTLIVAVDPGALAHCEA

Parental  VHPHCYLLEVTSANVSSANGFFTESYLELVWAKLSLQQRVLQLGYNYLFTDVDVMWLRNPFRHISLYADM
          VHPHCYLLEVTSANV.SAN.F...SY.ELVWAKL.LQQRVLQLGY.YLFTDVD.MWLRNPFRHISLYADM
Retrocopy VHPHCYLLEVTSANVRSANRFMSKSYFELVWAKLELQQRVLQLGYSYLFTDVDIMWLRNPFRHISLYADM

Parental  VVSTDRFSGDAEALTNAPNTGFYYVKSTNRTVEMLRRWRVARSRFPPTHDQAVFNEIKAELAAGELDIKF
          .VSTDRF.GDAEALTNAPNTGFYYVKSTNRTVEM.RRWR.ARSRFPPTHDQAVF.EIK.ELA.GEL.I.F
Retrocopy AVSTDRFNGDAEALTNAPNTGFYYVKSTNRTVEMVRRWRAARSRFPPTHDQAVFDEIKGELAGGELRIRF

Parental  VFLDTTLFDGFCQFHSKMDTVCTMHANCCIGLENKVHDLGNMAADWKNYTNKVIPLEKRSHESRWTFPAK
          VFL.T.LFDGFCQ.H..MD.VCTMHANCCIGLENKVHDL.NMAADWKNYT....P.E.R....RWT.P..
Retrocopy VFLETALFDGFCQLHGEMDRVCTMHANCCIGLENKVHDLTNMAADWKNYTS-LAPAERRGSGRRWTAPDQ

Parental  CEASMGHR
          CE.SM..R
Retrocopy CEDSMRQR

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_15 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_17082	1 retrocopy	retro_atau_15 ,