RetrogeneDB ID: retro_taes_49

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_7DL_scaff_365319:5686..9055(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_7DL_B97485193
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2DL_8EF06D1FA
• Aliases: None
• Description: None

Sequence

>retro_taes_49
ATGGCCCTGCCGCCTGAGCCGCCGGAGGAGATCAACGAGGTTGCGTTTGACGTTGAGCGAGAGGAAGAGGAAGGTGACAC
TGTTGGTGAAACTTTCATGGATTATAAGCCTCCTAAGCTATCTCTTGGTCTTCCTCATCCGGACCCTGTGGTGGAGACTT
CATCTTTATCAGCGGTGCAGCCTCCTGAGCCTACTTACAACCTGGCTATTATGGATGAATTGGATGAGACCAGGGCATTG
TCATGCTTACAGATTGAGACAATAGTGTATGCTTGTCAGAGGCATCTTCACCATCTCCCTACTGGTGCTAGAGCAGGTTT
CTTCATTGGTGATGGAGCCGGTGTTGGTAAAGGGCGTACAATTGCTGGGTTGATCTGGGAGAATTGGCAGCAGGGGAGGC
ATAAGGCATTGTGGATTTCCATTGGTTCAGACTTGAAATATGATGCCCGCAGAGATTTGGATGATGTTGGTGCAAAATGT
GTGCAAGTGCACGCGTTGAACAAGCTGCCATATTCTAAGTTAGACTCGAAGGCCACTGGGATCGCAGACGGAGTTGTTTT
TGTTACTTATAGCAGTTTAATAGCATCCTCTGAGAAAGGGTATTCACGTTTGCGGCAGCTGGTAGAGTGGTGTGGATCTG
AGTACGATGGTCTTGTGGTGTTTGATGAGTGCCACAAGGCTAAAAATCTGATTCCTGAGGCAGGAGGTCAGCCCACTCGC
ACTGGTAAATCAGTTCTTGAGATCCAGGAAATGTTACCTGAAGCTCGAGTGGTTTACTGCTCAGCAACTGGTGCATCAGA
GCCTCGGAATTTAGGCTACATGGTCCGGCTTGGTCTCTGGGGAGACGGAACATCATTTCAGAGTTTTCACCAATTTCTAG
GTGCTCTTGAGAAAGGTGGTGTGGGTGCCCTTGAACTTGTTGCTATGGACATGAAAGCTAGGGGCATGTATGTCTGCCGC
ACACTTAGTTATAAGGGTGTTGATTTTGATGTTGTTGAGGCACCTCTAGAGGACAGAATGATGAATATGTACAGAAAGGC
AGCTGAATTTTGGGCTGAGTTGCGTGTTGAGCTCCTATCAGCAAGTGAGTACTATGCAGAAGACAAGAGCAATTCGGCTC
AGATATGGCGGTTATACTGGGCCAGCCATCAGCGTTTCTTTAGGCATATGTGTATGTCTGCAAAGGTGCCTGCTGTTGTG
AGGTTGGTGAAGGAAGCCTTAGCAGAAGAAAGATGTGTGGTGGTTGGTCTCCAGAGCACTGGTGAAGCTCGAACAGAGGA
AGCTATCACAAAATATGGTGTTGAAATGGAAGACTTCATTTCTGGCCCTAGAGAGTTGCTTCTTAAGCTGGTAGAAGATA
ACTATCCCTTGCCTCCAAAACCTGATTGTTCTCAGCAAGGTGAAGAAAAGGTTACGGAGGTCCAGCGTAAGCGGCATTAT
GGACCCGATGTATCCTTAAAAGGACGAGTTAGGAAACTCGCAAAAATGGAAGATAGTGATGATGGAATGGATGCGCACTC
TCCATTGGAGTCAGACCATGAATTAACAGATTCTGAAGAGGAATTGCATATGTGTCAGATCTGCAATACCGAGGAGGAGA
AGAGCCTGTTGCTTCATTGTTCCAATTGTGCTACAAGTGTTCACCCTGGCTGTCCAATTCCACCATGGACTGGAACGTTG
ACAGATGATTGGTTATGTTATGCATGCAAGGAGATAATAGAAGGCTATTTTAAAGAGAGAGATGCTTACATGGCTGAACT
ATCAAAGAGATATGACAGTGCAGTGGACAGGAAGTTAAAGATTTTAGAAATCATCCGTGCTTTAGATTTGCCTAATAATC
CTCTAGATGATATCATTGATCAGCTAGGTGGTCCAGAGAATGTTGCAGAAATAACTGGAAGGCGCGGCATGCTAATAAGA
GCATCAGATGGAAAAGGTGTTGTTTACCAGGCGCGGAACACGAAAGAAATTGCATTGGACATGATCAATATGCATGAAAA
GCAGCTATTCATGGACGGAGAAAAGTTCATCGCAATAATATCGGAAGCAGGATCAGCTGGTGTTTCCTTACATGCTGATC
GAAGGGTAAAAAATCAGAGAAGAAGAGTACACATAACACTTGAACTTCCTTGGAGTGCAGACCGTGCAACCCAGCAGTTT
GGGAGAACACATCGTTCTAATCAAACTTCTGCACCTGTATATAGGATTCTTTTTACCAACCTTGGTGGTGAAAAGCGATT
TGCGTCAATTGTGGCAAAGCGACTAGAGTCTCTTGGAGCTTTAACACAAGGAGATCGAAGAGCTGGACCATCACTTAGTG
CTTTTAACTATGACAGCAGTTATGGAAAAAAAGCCCTGACAATGATGTACAGGGGTATAATGGAACAGGATGCATTTCCA
GTTGTGCCTTTGGGATGCTCTGAGAATCAATCTAGTCTCCAAGAATTCATCACTAGATCAAAAGCTGCATTAGTGGCAGT
TGGAATTATCAGGGATGCTGTAATCTGCATTGGAAAACATGGAGGAAAGCTTACTGGTAGGATTGTTGATTCTGATATGC
ATGATGTGGCCCGTTTCCTCAACCGTATTCTGGGATTAGCTCCAAACATCCAGAATAGGTTATTTGATCTCTTCACAAGC
ATACTCGACGTAGTAATTCAGAATGCACGAAGTGAAGGACGGCTTGATTCTGGTATTGTTGATATTAAAGCAAAAAGGGT
TGAAATGAAAGAACCACCGAAGACAGTTCATGTTGATAGCCTGTCTGGTGCTTCCACGGTGTTGTTCACTCTTACAATTG
ACCGTGGAGTTACTTGGGAGTCGGCTAAGGCAATTCTTGAAGAAAGGCAGAAAGATGGTGCGTGTTCTTCTAATGATGGG
TTTTACGAGTCCCGGAGAGAGTGGATGGGCAGAAGGCATTTCATGCTAGCGTTTGAAGGCTCAACGGAAGGAATGTACAG
AGTAACTCGCCCTGCCGTCGGGGAAGCTTCGAAGGAGATGCCTTTGGCTGAACTAGAAGGAAAGTACAAGAAGGCCTCAT
CGGCTGACAAAACTGGGGAAGGTTGGCAGGAAGAATATGATGTGTCGTCCAAGCAGTGCATGCATGGGCCCAAGTGCAGA
CTTGGAAGCGATTGTACTGTGGGCAGAAGGTTACAGGAGATTAATGTTTTGGGTGGTCTAATACTTCCTGTGTGGGGCGC
GGTAGAAAAGGCCCTGAATAAGCAGGCCCGACTGGCTCACAAGAGGATACGTGTCGTACGCTTGGAGACAACAGATGACA
ACCATCGGATTGTTGGGCTTGTCATTCCAAACACAGCAGTGGAGTCGGTGTTAGAAGGTCTGCAGTGGGTCCAGGACATC
GACGAATGA

Alignment

ORF - retro_taes_49 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.93 %
• Parental protein coverage: 99.82 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LTDDWSCYSCKKI-EGQEMEHDANVADFSKRYDSAVERKLKILDVIRSLDLPNNPLDDIIDQLGGPDKVA
          LTDDW.CY.CK.I.EG...E.DA..A..SKRYDSAV.RKLKIL..IR.LDLPNNPLDDIIDQLGGP..VA
Retrocopy LTDDWLCYACKEIIEGYFKERDAYMAELSKRYDSAVDRKLKILEIIRALDLPNNPLDDIIDQLGGPENVA

Parental  EITGRRGMLIRTSDGKGVIYQARNAKEVSMEMINMHEKQQFMDDKKLIAIISEAGSAGVSLHADRRAKNQ
          EITGRRGMLIR.SDGKGV.YQARN.KE....MINMHEKQ.FMD..K.IAIISEAGSAGVSLHADRR.KNQ
Retrocopy EITGRRGMLIRASDGKGVVYQARNTKEIALDMINMHEKQLFMDGEKFIAIISEAGSAGVSLHADRRVKNQ

Parental  RRRVHVTLELPWSADRAIQQFGRTHRSNQTSAPQYRLLFTNLGGEKRFASIVAKRLESLGALTQGDRRAG
          RRRVH.TLELPWSADRA.QQFGRTHRSNQTSAP.YR.LFTNLGGEKRFASIVAKRLESLGALTQGDRRAG
Retrocopy RRRVHITLELPWSADRATQQFGRTHRSNQTSAPVYRILFTNLGGEKRFASIVAKRLESLGALTQGDRRAG

Parental  PSLSAFNYDSTYGKKALTMVYRGIMEQDSFPVVPPRCSDNQASIEEFITEAKVALVSVGIIRDATVCNGK
          PSLSAFNYDS.YGKKALTM.YRGIMEQD.FPVVP..CS.NQ.S..EFIT..K.ALV.VGIIRDA..C.GK
Retrocopy PSLSAFNYDSSYGKKALTMMYRGIMEQDAFPVVPLGCSENQSSLQEFITRSKAALVAVGIIRDAVICIGK

Parental  VAGKLSGRIVDADMHDVARFLNRLLGLAPDIQNRLFDLFISILDVVLHNARREGQLDSGIVDIKGKNIEL
          ..GKL.GRIVD.DMHDVARFLNR.LGLAP.IQNRLFDLF.SILDVV..NAR.EG.LDSGIVDIK.K..E.
Retrocopy HGGKLTGRIVDSDMHDVARFLNRILGLAPNIQNRLFDLFTSILDVVIQNARSEGRLDSGIVDIKAKRVEM

Parental  KEPPKTVHVDSLSGASTILFTFTIDRGVTWESAKAMLDGRENDGAGSSNDGFYESKREWMGRRHFTLALE
          KEPPKTVHVDSLSGAST.LFT.TIDRGVTWESAKA.L..R..DGA.SSNDGFYES.REWMGRRHF.LA.E
Retrocopy KEPPKTVHVDSLSGASTVLFTLTIDRGVTWESAKAILEERQKDGACSSNDGFYESRREWMGRRHFMLAFE

Parental  GSTEGIYKIIRPAIGEALREMPLSELKGKYRKVSSIDKVSKGWQDEYDVSSKQCMHGSKCKVGSYCTVGR
          GSTEG.Y...RPA.GEA..EMPL.EL.GKY.K.SS.DK...GWQ.EYDVSSKQCMHG.KC..GS.CTVGR
Retrocopy GSTEGMYRVTRPAVGEASKEMPLAELEGKYKKASSADKTGEGWQEEYDVSSKQCMHGPKCRLGSDCTVGR

Parental  RLQEFNILGGLILPVWGTIEKALAKQVYQNHKRIRVVRLVTTNDNQRIVGLFIPNAAVESVLTGLQWVQD
          RLQE.N.LGGLILPVWG..EKAL.KQ....HKRIRVVRL.TT.DN.RIVGL.IPN.AVESVL.GLQWVQD
Retrocopy RLQEINVLGGLILPVWGAVEKALNKQARLAHKRIRVVRLETTDDNHRIVGLVIPNTAVESVLEGLQWVQD

Parental  IND
          I..
Retrocopy IDE

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_49 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_2DL_8EF06D1FA	1 retrocopy	retro_taes_49 ,