RetrogeneDB ID: retro_taes_123

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 3B:592762728..592764621(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_1AS_DD0497955
• Aliases: None
• Description: None

Sequence

>retro_taes_123
ATGGTTTTTAGAGGAAGACATCAGATGAAGAAAGCTCTAATAAAATATGGCATTAAGAAACATGTGCATATTGCTTTCAC
AAAGGATGAAAATCATAAAGTAGGTGCAAAGTGTACTTGGCCTGGCTGCAACTGGATGATCTATGCTTCTAAAACTACTA
GAAATAAGTGGCTACAGGTGTCTACCTTTGTAGATGAGCACCATTGCATTCCAAGAAGAGATAACAAACTGGTCACATCA
ACTGTTATTGCTACAAAATATGGCAGGCTTATAAGAGCAAATCCAAATTGGAAGTTAGAAGATTTGAGGAAAACTGTACT
TGAGGACTTATTTGCTGCTGTGACAGTTGCACAGTGCAAGAAGGCAAAGAGAATGGTCATGCAGAAACTATTGCATTCCA
CTGAAGGAGAGTACTCAAAATTATTTAATTATCAGTTAGAGCTGCTGAGAACTAATCCTGGAAGCACAGTTGCAGTGAAG
TTGGACCATAATGGAAAGGATGGGTCATATGTATTTCAAAGGTTTTACATGTGTTTTGATGCCTTGAAGAAAGGTTTCTT
GGCAGGTTGTAGAAAAGTTATTGGCCTTGATGGTTGTTTTTTCAAAGGTGCTTGCTATGGACAGATGTTGTGTGCTATAG
GAAGAGATGCAAATAACCAGATGTATCCTATTGCTTGGGCTGTTGTGGAGAAAGAAAATTATGAGTCATGGTTCTGGTTT
CTTGCCAAAATAAACCAGGACTTGAAAATAAGCAATCAAGGAGATGGATATGTATTTATGTCAGATCAACAAAAGGGACT
TATAGGGGCAATGGATGACATTTTTCCTAAAGCTGAGCATAGAATGTGTGCAAGACACATATATGCTAATTGGAAGAAAA
AACACCCAGACCATGATCTTCAGAAAAGGTTTTGGAGATGTGCAAAATCACCAAACAAAGTGATTTTCAACTACAACAGG
GCCAGGCTAGCACAATTTACTGTTGAGGGTGCAAAAGATATGATGAACACTGATCCAGTACATTGGAGTAGGGCCTACAT
GAAGCTGGGGTCTAATTGTGATTCAGTTGATAACAACATGTGTGAATCTTTCAACAACTACATCCTGTTAGCTAGGTACC
TTGCTATTGTCTCAATGCTTGAGTGGATCAGGTGCAAAATTATGGTGAGGGTACAAGAAAATAGAGGGAAGTCAGTTAAC
TGGAAAGGAACTATATGTCCCAACATTTTCAAAAAACTGAAGCAAAACATAAGGAGATCAGGTTTCTGCCATGTGCTGTG
GAATGGGAAAGATGGATTTGAAGTGCAAGAGCATGAGAAATTCAAATTTACTGTTAACTTGCAGCTCTGGACTTGCTCGT
GTAGATATTGGCAGCTGTCAGGTTTACCCTGCTGCCATGCCATTAGTGCTATCTATAAAACAGGACAAAAAATTGATGAT
TATATTGCTCCTTGCTACTCCATAGAAGTGTACAACAAGATATATGATCATTGCTTACAACCTTTGGAGGGAGAGGAGAG
TTGGCCTATTTCAACAAATCCAAAGCCACAACCACCTGGTCACATTAGCTTGCCTGGAAGGCCTAAAACAGAAAGAATGA
GAGAGGAAGGAGAAAAACCTAAGGGTACTAAGATGAGCAAAGTAGGTGGCAAGATCACTTGTAGTTCTTGCAAAAGGCAA
GGACATAATAGATCAAGCTGTAAGAACAATGATGGAGCTAAACATCATGGAAATGCTCATTTGGTCGATGCACATGGACC
GAAATCACCTGAATTGGGGGCTGATTGGTCGACCGGCTCCCCCAATCGATGAAAACACCTGAAATCTGCCAAGTCAGCAC
TGTCCAGTCAGCAAGGAGACTAGTCAAAACCACCTAAATCTGGTGCAAAACCA

Alignment

ORF - retro_taes_123 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.08 %
• Parental protein coverage: 90.41 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAFRDSREFKQALVKYGLANFHHLRFPKDEKKRVSAECSWPGCPWSIYGSISSRSDWLLVVRYKNEHTCI
          M.FR.....K.AL.KYG.....H..F.KDE...V.A.C.WPGC.W.IY.S...R..WL.V.....EH.CI
Retrocopy MVFRGRHQMKKALIKYGIKKHVHIAFTKDENHKVGAKCTWPGCNWMIYASKTTRNKWLQVSTFVDEHHCI

Parental  PRRDNKLVTSTVIAKKYFRQIRHNPTWHVEHMQEAVLEDLLADVSLSQCKRAKKLVMEKLTDLTNGEYSR
          PRRDNKLVTSTVIA.KY.R.IR.NP.W..E.....VLEDL.A.V...QCK.AK..VM.KL...T.GEYS.
Retrocopy PRRDNKLVTSTVIATKYGRLIRANPNWKLEDLRKTVLEDLFAAVTVAQCKKAKRMVMQKLLHSTEGEYSK

Parental  VYDYHLELVRSNPGSTVAVTLDPEIFDKP-VFQRMYICLDACKKGFLAGCRRVVGLDGCFLKGSVSGQIL
          ...Y.LEL.R.NPGSTVAV.LD....D...VFQR.Y.C.DA.KKGFLAGCR.V.GLDGCF.KG...GQ.L
Retrocopy LFNYQLELLRTNPGSTVAVKLDHNGKDGSYVFQRFYMCFDALKKGFLAGCRKVIGLDGCFFKGACYGQML

Parental  CAIGRDSNNQMYPIAWATVEVESYDSWYWFLSFLQKDLQISNNGDGWVFISDQQKGLIRAVNEIVPEAEH
          CAIGRD.NNQMYPIAWA.VE.E.Y.SW.WFL.....DL.ISN.GDG.VF.SDQQKGLI.A...I.P.AEH
Retrocopy CAIGRDANNQMYPIAWAVVEKENYESWFWFLAKINQDLKISNQGDGYVFMSDQQKGLIGAMDDIFPKAEH

Parental  RMCARHIYANWRKVHRDKKLQKMFWACAKSSDVTQFNYNRAKLAQKSVEGAKDILKTAPEHWSRAYFKLG
          RMCARHIYANW.K.H.D..LQK.FW.CAKS.....FNYNRA.LAQ..VEGAKD...T.P.HWSRAY.KLG
Retrocopy RMCARHIYANWKKKHPDHDLQKRFWRCAKSPNKVIFNYNRARLAQFTVEGAKDMMNTDPVHWSRAYMKLG

Parental  SWCDSVENNLCESFNNAIMKARFFPVITTNEIIRKKVMVRIQENRDKSNSWPGTICPNVFKKLKLNIKRS
          S.CDSV.NN.CESFNN.I..AR........E.IR.K.MVR.QENR.KS..W.GTICPN.FKKLK.NI.RS
Retrocopy SNCDSVDNNMCESFNNYILLARYLAIVSMLEWIRCKIMVRVQENRGKSVNWKGTICPNIFKKLKQNIRRS

Parental  GLCQVLWNGKEGFEVQEGVHRRYTVNLEAWKCSCRYWELAGLPCPHAISAIYTCGKKLDDYIAPCYSISE
          G.C.VLWNGK.GFEVQE......TVNL..W.CSCRYW.L.GLPC.HAISAIY..G.K.DDYIAPCYSI..
Retrocopy GFCHVLWNGKDGFEVQEHEKFKFTVNLQLWTCSCRYWQLSGLPCCHAISAIYKTGQKIDDYIAPCYSIEV

Parental  YNKIYDHVLQPVEGKENWPVADMPKPHPPPHRVMPGRKKTKRRREEGEKPQGNKLSKKGIRISCSVCGSF
          YNKIYDH.LQP.EG.E.WP....PKP.PP.H...PGR.KT.R.REEGEKP.G.K.SK.G..I.CS.C...
Retrocopy YNKIYDHCLQPLEGEESWPISTNPKPQPPGHISLPGRPKTERMREEGEKPKGTKMSKVGGKITCSSCKRQ

Parental  DHNKRKCLGNPNRDKKQKDNYKRAAQRARKKKQKESEINTQVPQPPKRTNNAVSSSSRAPPNPAKRAKKQ
          .HN...C..N.....K...N.........K.........T..P...K....A.S..S.......K..K..
Retrocopy GHNRSSCKNNDG--AKHHGNAHLVDAHGPKSPELGADWSTGSPNR*KHLKSAKSALSSQQGD*SKPPKSG

Parental  APP
          A.P
Retrocopy AKP

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Triticum aestivum was not studied using RNA-Seq expression data.

ChIP-Seq

Triticum aestivum was not studied using ChIP-Seq data.

EST

Triticum aestivum was not studied using EST data.

TSS

Triticum aestivum was not studied using FANTOM5 data.

Lab

retro_taes_123 was not experimentally validated.

Homology

Retrocopy orthology:

Triticum aestivum 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
Triticum aestivum	Traes_1AS_DD0497955	1 retrocopy	retro_taes_123 ,