RetrogeneDB ID: retro_taes_37

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_5BL_scaff_10919108:5178..7335(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_5BL_51DB820A1
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_7DL_41F6E8FC4
• Aliases: None
• Description: None

Sequence

>retro_taes_37
CTAACCCTAGCACAAACACCAGCGACCGGCCATGGCGCTCACCACCCGCAGAGGCGGCGGCGCGGACCAAGCGAGCCTCG
GCTTCCTCACGAACCGCGACACGGAGGTCAGGCTCCCCCGCGCGACGCGGGTGAAGAACAAGGCGCCAGCGGGGGTCCAG
ATCACCGCCGAGCAGATCCTCCGGGAGGCCCGGGAGAGGCAGGAGCCCGAGATCCGCCCGCCCAGGCAGAGGATAACGCC
CAGGAGCTCGCGGACTACCGGCTCGGCGAGCGCAAGAGATTCGAAGGCCTCGTCACTCGCGGGGGCATCCCGGCGTGGGT
CAAGTATGCTCGGTGGGAGGAGGGGCAGGGGGACCTCGCCCGGGCTCGCTCCGTCTACGAGCGCGCCCTGGACCTGGACG
CCGCCCGCCGCGACCACGCGCTGTGGCTCAAGTACGCCGAGTTCGAGATGCGCAGCCGGTGCGTCAACCACGCGAGGAAC
GTCTGCGACCGCGCCGTCTCGCTCCTCCCCCGCGTCGACCAGCTGTGGCACAAGTACATCCACATGGAGGAGCTGCTTGG
CGCCATCGCCAATGCTCGCCTGCTCTTCGAGCGCTGGATGGGATGGCGTCCGGACATTGCTGCCTGGAGCTCGTACATCA
AATTTGAGCTGCGGTATGGGGAGGTTGAACGTGCAAGGGCGATCTATGAGCGCTTTGTCACCGAGCACCCACGGCCCGAC
ACGTTCGTCCGATACGCCAAGTTCGAGATGAAACATGGAGGAGTAGAGCGGGCGCGGCGCGTGTATGAGCATGCATCGGA
ACAGCTTGTGGATGATGAAGACGTGGAGGTTGTGTTTGTAGCATTTGCTGAGTTCGAGGAACAACGCCGGGAGGTGGAGC
GGGCTCGTGCGATATACAAGTATGCACTTGACAGAGTGCCGAAGGGCAAGGCTGAGGACCTTTACAGGAAGTTCCTGGCA
TTTGAGAAACGATTTGGTGACCGTGAGGGGATTGAGGAAGCCATTGTGGGCAAGCAAAGGTTCCAATATGAAGATGACGT
GAGGAAGAACCCCCTCAATTACGACTCATGGTTCGATTACATCAGGCTGGAGGAGAGCGCTGGTAATAAGGACAGGATAA
GGGATGTGTACGAGAGGGCTATCGCAAACGTTCCCCCTGCACAAGAGAAGCGGTACTGGCAGACATATATATACCTTTGG
ATAAACTATGCTCTGTATGAGGAACTTGATGCACAGGACATGGAGAGGACCGGGGAGGTCTATAGGGCGTGTCTGAAACT
CATTCCGCACAAGAAGGTTACATTTGCGAAGTTGTGGCTGATGGCTGCGCAGTTTGAGATAAGACAGAAGAACATGAAGG
CTGCACGCCGGATTCTCGGCAATGCAATAGGTATGGTGCCCAAGGGGAAATTATTCAAGGAGTACATTGAGATCGAGCTT
CACCTCGGCAGTTTCGACCGCTGTAGAACTCTATATGAGAAGTATATTGATTGGTCTCCAGCAAACTGTTATGCCTGGAG
GAAGTATGCTGAGCTCGAAAAGAACCTTCACGAGGCTGACCGCGCTCGATCAGTATATGAGCTTGGTATCGCACAGCCAT
CCCTTGATACGCCTGAGGTTCTTTGGAAGGAGTACTTGCAGTTTGAAATTGATGAAGGTGAGTTTGGTAGGGCAAGGGAA
CTCTACGAGAGACTGCTTGATAGAACAAAGCATCTGAAGGTATGGATCAGCTACGCCGAATTCGAGGCCTCGGCTGGCTT
GGCAGAAGACAATGGAAGTGAGGTGAATAAGAATGATGTTGGTTACCAGGAACAGCAGATCGAGCGGGTCCGGATGTGTC
GAGCTGTCTTTGAAAGGGCATTCGACTATTTCAGGACCAATGCTGCAGAGCTAAAGGAAGAAAGAGCAATGCTCCTGGAA
GAATGGCTCAAAAAAGAGTTGGGTTTTGGTGATCTTGGTGATGTCGCCCTAGTGCAGAAGAAGGCGCCAAGGAAAGTGAA
GAGGAAGAGACCACTGCCCACAGACGATGGCTCCAAAATTGCGTACGAGGGGTACGTTGATTATATCTTCCCTGATGAAG
TCACGCCGGCGTCGAACCTCAAGATATTGGAAGCTGCTTACAATTGGAAGGAGAGAAGACTGTTTGATCGACATGTT

Alignment

ORF - retro_taes_37 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.01 %
• Parental protein coverage: 99.3 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MRNRYVNHARNVWDRAVSLLPRIDQLWYKYIHMEELLGAVANARQVFERWMGWRPDIAGWNSYIKFELRY
          MR.R.VNHARNV.DRAVSLLPR.DQLW.KYIHMEELLGA.ANAR..FERWMGWRPDIA.W.SYIKFELRY
Retrocopy MRSRCVNHARNVCDRAVSLLPRVDQLWHKYIHMEELLGAIANARLLFERWMGWRPDIAAWSSYIKFELRY

Parental  GEVERARAIYERFVAEHPRPDTFIRYAKFEMKRGEVERARRVYERAADLLVDDEDAEVLFVAFAEFEEKC
          GEVERARAIYERFV.EHPRPDTF.RYAKFEMK.G.VERARRVYE.A...LVDDED.EV.FVAFAEFEE..
Retrocopy GEVERARAIYERFVTEHPRPDTFVRYAKFEMKHGGVERARRVYEHASEQLVDDEDVEVVFVAFAEFEEQR

Parental  REVERARAIYKYALDRVPKGRAEDLYRKFLAFEKQFGDREGIEDAIVGKRRFQYEDEVRKNPLNYDSWFD
          REVERARAIYKYALDRVPKG.AEDLYRKFLAFEK.FGDREGIE.AIVGK.RFQYED.VRKNPLNYDSWFD
Retrocopy REVERARAIYKYALDRVPKGKAEDLYRKFLAFEKRFGDREGIEEAIVGKQRFQYEDDVRKNPLNYDSWFD

Parental  YIRLEESVGNKDRIRDVYERSIANVPPAEEKRYWQRYIYLWINYALYEELDAQDMERTREVYRECLKLIP
          YIRLEES.GNKDRIRDVYER.IANVPPA.EKRYWQ.YIYLWINYALYEELDAQDMERT.EVYR.CLKLIP
Retrocopy YIRLEESAGNKDRIRDVYERAIANVPPAQEKRYWQTYIYLWINYALYEELDAQDMERTGEVYRACLKLIP

Parental  HKKFTFAKLWLMAAQFEIRQKNIKAARQILGNAIGMAPKGKIFKKYIEIELYLGNFDRCRTLYEKYIEWS
          HKK.TFAKLWLMAAQFEIRQKN.KAAR.ILGNAIGM.PKGK.FK.YIEIEL.LG.FDRCRTLYEKYI.WS
Retrocopy HKKVTFAKLWLMAAQFEIRQKNMKAARRILGNAIGMVPKGKLFKEYIEIELHLGSFDRCRTLYEKYIDWS

Parental  PANCYAWRKYAELEKNLSETDRARSIYELAIAQPALDTPEVLWKEYLQFEIDEDEFDRARELYERLLDRT
          PANCYAWRKYAELEKNL.E.DRARS.YEL.IAQP.LDTPEVLWKEYLQFEIDE.EF.RARELYERLLDRT
Retrocopy PANCYAWRKYAELEKNLHEADRARSVYELGIAQPSLDTPEVLWKEYLQFEIDEGEFGRARELYERLLDRT

Parental  KHLKVWISFAEFEASAGLGEDDGSEENKNDVGYQEQQAERVRRCRAVFERAFDYFRTNAAELKEERAMLL
          KHLKVWIS.AEFEASAGL.ED.GSE.NKNDVGYQEQQ.ERVR.CRAVFERAFDYFRTNAAELKEERAMLL
Retrocopy KHLKVWISYAEFEASAGLAEDNGSEVNKNDVGYQEQQIERVRMCRAVFERAFDYFRTNAAELKEERAMLL

Parental  EEWLKKELSFGDLGDVTLVQKKAPRKVKRKRPLPTDDGSSIAYEEYIDYIFPDEVTLAPNLKILEAAYKW
          EEWLKKEL.FGDLGDV.LVQKKAPRKVKRKRPLPTDDGS.IAYE.Y.DYIFPDEVT.A.NLKILEAAY.W
Retrocopy EEWLKKELGFGDLGDVALVQKKAPRKVKRKRPLPTDDGSKIAYEGYVDYIFPDEVTPASNLKILEAAYNW

Parental  KKQKAND
          K.....D
Retrocopy KERRLFD

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_37 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Arabidopsis thaliana	AT5G41770	1 retrocopy	retro_atha_18,
Brassica oleracea	Bo6g066460	1 retrocopy	retro_bole_29,
Solanum tuberosum	PGSC0003DMG400005011	2 retrocopies	retro_stub_23, retro_stub_36,
Triticum aestivum	Traes_7DL_41F6E8FC4	1 retrocopy	retro_taes_37 ,