RetrogeneDB ID: retro_taes_138

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 5B:236339154..236340089(+)
• 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_138
GGAGGATCTGTCCCTGACTCGGTGAGCAACAACGACGAGAAAGCCGATAAAGGACATACAATTGACTCTTCCTCAACAAT
GGCAGGCAAGCCAGTTTTAACCCTAAAGATCATTCTTATGAACTCACTTATTCTCGCTGGAAGAAGTCCTTTCTTTCTAA
AGCTTTTCACTAATGGCATGAAAGAATCCGGTGAGACGCATCCAAGAATTAGGATTGCTGATTCAGAGGAAAATGCCCTT
ATGGAGCTTCTAAGATTCATGTATAGTGCAAAGTTGACAACAATTGAGCCCACTCCTCTGCTCAACATCTTGATGACTGC
TGATAAATTTGAGGTTCTTGCTTGCATGAGGCACTGTAGTCAGTTGCTCACAAGCCTTCCTACGACCACATAATTTGCAT
TTCTATACCTAGACCATCCATGATCCTCTTTAATGGTTGCTGAAGTTTAGAGTGTGGTACATGTAGCCAAGGAATTCCTC
GCTGACAAATACAAGGATTTTCGTAAGTTCGAAGCTGAAGTGATAAACATCACTCTTGTTGGGATCGAGTCCATCTTTTC
GAGTACTGACCCGATGTTACTATCTGAAGATGATGCATATTACTTCTTTCTCAACTGGGCCAGTGTGCGATACCCAGAAT
TTGAGGAAAGACGGAAGATCTAGAGTTGCCGTTTACTTCTGCTGGTACGCTTCAGTCATGTGATAGGTTTGTCACTTCAG
AATGTCCTAGCATGCACTGATGATGATATAGACCATGAGCAAGTACCTCAATGTATTGCTGAGATACTTCTATACAAAGT
TTACCCAACACAGATGGAAGGTACTCATGCAGCAGAAGTAGCAACCCATCACAATTTTCCGAGCAAATTTAGGAGTTGAG
GACCATGAAAGTTGTTGCGTTCGATCGACCCTGCCCACATGTTACAGTTTACATG

Alignment

ORF - retro_taes_138 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.02 %
• Parental protein coverage: 61.66 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GGSSANQERRREEQGEKEQSVDSSSMMVGTPVLREKNIHINSAILASRSPFFLKFFSNGMKESDQTNPTI
          GGS.........E...K....DSSS.M.G.PVL..K.I..NS.ILA.RSPFFLK.F.NGMKES..T.P.I
Retrocopy GGSVPDSVSNNDEKADKGHTIDSSSTMAGKPVLTLKIILMNSLILAGRSPFFLKLFTNGMKESGETHPRI

Parental  RITDSEENAFMELLSYMYSGKLTTAEPTRLLDILMAADKFEVLSCMRHCSQLLISLPMTTESALLYIDHP
          RI.DSEENA.MELL..MYS.KLTT.EPT.LL.ILM.ADKFEVL.CMRHCSQLL.SLP.TT..A.LY.DHP
Retrocopy RIADSEENALMELLRFMYSAKLTTIEPTPLLNILMTADKFEVLACMRHCSQLLTSLPTTT*FAFLYLDHP

Parental  CSVSMVNEVRPLIDASKEFLANKYKDFYEFKSELMNISLAGIEAIFSSTDIQVETEDDVYYFMLDWARAR
          .S..MV.EV.......KEFLA.KYKDF..F..E..NI.L.GIE.IFSSTD.....EDD.YYF.L.WA..R
Retrocopy *SSLMVAEV*SVVHVAKEFLADKYKDFRKFEAEVINITLVGIESIFSSTDPMLLSEDDAYYFFLNWASVR

Parental  YVELEERRKILSSRLLPLVRFSHMTCMTLQEILASTDNDIDREQVTHRIAEALLPKAYPKQLEGALAAEV
          Y.E.EERRKI.S.RLL.LVRFSH.....LQ..LA.TD.DID.EQV...IAE.LL.K.YP.Q.EG..AAEV
Retrocopy YPEFEERRKI*SCRLLLLVRFSHVIGLSLQNVLACTDDDIDHEQVPQCIAEILLYKVYPTQMEGTHAAEV

Parental  TT-CSRFAERAYEYKPVKLVAFDQPCPQIIVYL
          .T..S.F.E...E....K.VAFD.PCP...VY.
Retrocopy AT<PSQFSEQI*ELRTMKVVAFDRPCPHVTVYM

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_138 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.

---

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,