RetrogeneDB ID: retro_taes_218

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_5DL_scaff_4507198:10774..11712(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_5DL_DEAE3B117
• Aliases: None
• Description: None

Sequence

>retro_taes_218
GGAGGATCTGTCCCCGACTTCGTGAGCAATAACGACGAGAAAGCTGATAAAGGACATACAATTGACTCTTCCTCAACAAT
GGCAGGCAGGCCTGTTTTAACCCTAAAGAGCATTCTTATGAATTTGCTTATTCTCACTGGAAGAAGTCCTTTCTTTGTAA
AGCTTTTCACTAATGGCATGAAGGAATCCGATGAGACGCATCCAAGAATTAGGATTGTTGATTCAGAGGAAAATGCCCTT
ATGGAGCTTCTAAGATTCATGTATAGTGGAAAGTTGACAACAATTGAGCCCACTCTTCTGCTCGACATCTTGATGGCTGC
TGATAAATTTGAGGTTCTTGCTTGCATGAGGCACAGTCAGTTTCTCACAAGCCTGCCTATGACCACATAATTTGCATTTC
TATACCTAGACCATCCATGATCCTCTTTAATGGTTGCTGAAGTTTAGAGTGTAGTACGTGTAGCCAAGGAATTCCTTGCT
GACAAATACAAGGATTTTCGTAAGTTCGAAGCTGAAGTGATGAACATCACTCTTGTTGGGATCGAGGCCATTTTTTCGAG
TACTGACCTGATATTACTATCTGAAGATGAGGCATATTACTTCTTTCTCAAGTGGGCCAGTCTCCGATACCCAGAATTTG
AGGAAAGACGGAAGATCTAGAGTTGTCGTTTACTTCCACTGGTACGCTTCAGTCATATGACAGGTTTGTCACTTCAGAAT
GTCCTAGCATGCACTGATGATGATATAGACCATGAGCAAGTAGCTCAACGTATTGCTGAGGTACTTCTATACAAAGCTTA
TCCAACACAGATGGAAGGTACTCCTGCAGCAGAAGTAGCAACCCATCACAATTTTCTGAGCAAACTTACGAGTTGAGGAC
CATGAAAGTTGTTGCGTTCAGTCGACCCTGCCCACATGTTACAGTTTACATGGCATTA

Alignment

ORF - retro_taes_218 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.86 %
• Parental protein coverage: 62.06 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GGSSANQERRREEQGEKEQSVDSSSMMVGTPVLREKNIHINSAILASRSPFFLKFFSNGMKESDQTNPTI
          GGS.........E...K....DSSS.M.G.PVL..K.I..N..IL..RSPFF.K.F.NGMKESD.T.P.I
Retrocopy GGSVPDFVSNNDEKADKGHTIDSSSTMAGRPVLTLKSILMNLLILTGRSPFFVKLFTNGMKESDETHPRI

Parental  RITDSEENAFMELLSYMYSGKLTTAEPTRLLDILMAADKFEVLSCMRHCSQLLISLPMTTESALLYIDHP
          RI.DSEENA.MELL..MYSGKLTT.EPT.LLDILMAADKFEVL.CMRH.SQ.L.SLPMTT..A.LY.DHP
Retrocopy RIVDSEENALMELLRFMYSGKLTTIEPTLLLDILMAADKFEVLACMRH-SQFLTSLPMTT*FAFLYLDHP

Parental  CSVSMVNEVRPLIDASKEFLANKYKDFYEFKSELMNISLAGIEAIFSSTDIQVETEDDVYYFMLDWARAR
          .S..MV.EV.......KEFLA.KYKDF..F..E.MNI.L.GIEAIFSSTD.....ED..YYF.L.WA..R
Retrocopy *SSLMVAEV*SVVRVAKEFLADKYKDFRKFEAEVMNITLVGIEAIFSSTDLILLSEDEAYYFFLKWASLR

Parental  YVELEERRKILSSRLLPLVRFSHMTCMTLQEILASTDNDIDREQVTHRIAEALLPKAYPKQLEGALAAEV
          Y.E.EERRKI.S.RLLPLVRFSHMT...LQ..LA.TD.DID.EQV..RIAE.LL.KAYP.Q.EG..AAEV
Retrocopy YPEFEERRKI*SCRLLPLVRFSHMTGLSLQNVLACTDDDIDHEQVAQRIAEVLLYKAYPTQMEGTPAAEV

Parental  TT-CSRFAERAYEYKPVKLVAFDQPCPQIIVYLDL
          .T..S.F.E..YE....K.VAF..PCP...VY..L
Retrocopy AT<PSQFSEQTYELRTMKVVAFSRPCPHVTVYMAL

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_218 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_5DL_DEAE3B117	4 retrocopies	retro_taes_138, retro_taes_140, retro_taes_143, retro_taes_218 ,