RetrogeneDB ID: retro_taes_40

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 2B:300210433..300211879(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_2BL_DEFCD4BDC
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_7AS_26CAC27FF
• Aliases: None
• Description: None

Sequence

>retro_taes_40
ATGGCCCTAGCAGACGTCGATGTGGAGATCGGGGGACTGCCGGCGGAGCACCGTCTGCGGATCATCGGCGACGGTTCCGT
CGACGACGACGGCAAGCCCAAGAGAATGGGAACGGTATGGACGGCGAGCGCGCACATCATAACGGCGGTGATCGGCTCCG
GCGTGCTGTCCCTGCCCTGGTCCATGGCGCAGCTCGGCTGGGTCGCCGGGCCGTCCACGCTCGTTGTCTTCGCCGGCGTC
ACGTACTACACCTCCGTGCTCCTCACCGACTGCTACCGCAGCGGCGACGCCGTCGCCGGGAAGAGGAACTACACCTACAT
GGAGGCCGTCGAGTCCTACCTAGGCAGCGGCCAAGTGTGGTTCTGCGGCCTCTGCCAGTACGTCAACCTCGTCGGAACCG
CAATCGGGTACACCATCACGGCGTCGACCAGCGCCGCCGCTCTGTACAAGGCCAACTGCTTCCACAAGGGCGGCCACTCT
GCCGACTGCGGCGTGTACACCACCATGTACATGGTCGTGTTCGGGGTCTCCCAGGTCGTCTTCTCCCAGCTCCCCAACCT
CCATGAGATGGCGTGGCTGTCCATCCTGGCCGCGGTCATGTCCTTCTCCTACTCCACGATCGGCGTTGGCCTCTCCTTGG
CGCAGACCATATCAGGCCCTACGGGCAAGACGACCATGGGTGGCACTGCCATTGGGGTAGACGTTGCAAGTTCGGCCCAG
AAGATATGGCTGACACTGCAGGCGCTCGGCAACATCGCGTTCGCCTACTCGTACTCCATGGTCCTTATAGAAATCCAGGA
CACGGTGAGGGCGCCTCCGGCCGAGAACAAGACGATGAGGAAGGCGAACCTCATGGGGGTCTCCACCACCACGGCCTTCT
ACATGCTCTGCGGCTGCCTCGGCTACGCCGCCTTCGGCAACGCCGCGCCCGGGAACATGCTCACCGGCTTCGGCTTCTAC
GAGCCCTTCTGGCTCATCGACTTCGCCAACGTCTGCATCGTCGTGCACCTCGTCGGCGCCTATCAGGTCTACTGCCAGCC
CATCTACGCCGCCGTGGAGAGCTGGGCCGCGGCGCGGTGGCCGGGCTCGGACTTCGTCGTCCGCCAGTACCATCCCTTCG
GCGCCGACAGGTTCGGCGTCAACATGTTCAGGATGGTGGGGAGGACGGCGTTCGTCGTGGTCAGCACGGTGCTCGCCATC
TTGCTGCCCTTCTTCAACGACATCCTTGGGCTCCTCGGCGCGCTCGGGTTCTGGCCGCTCACCGTCTACTTCCCTGTCGA
GATGTACATCCGGCAGAGCAAAGTGAAGAGGTCCTCGTGGAAGTGGGTGGCGCTACAGAGCCTGAGTTTCGTGTGCTTCG
CGGTGACGGTGGGCGTGACCGTGGCGTCCGTGCAGGGAATCACCCAATCGCTCAAAAACTATGTGCCGTTCAAGACCAGG
TTGTGA

Alignment

ORF - retro_taes_40 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.2 %
• Parental protein coverage: 96.03 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VAADDSLDDDGKPRRTGTVWTASAHVITAVIGSGVLSLPWSVAQLGWVAGPVTLLLFAIITYYTSVLLGD
          ...D.S.DDDGKP.R.GTVWTASAH.ITAVIGSGVLSLPWS.AQLGWVAGP.TL..FA..TYYTSVLL.D
Retrocopy IIGDGSVDDDGKPKRMGTVWTASAHIITAVIGSGVLSLPWSMAQLGWVAGPSTLVVFAGVTYYTSVLLTD

Parental  CYRSEDAVTGKRNYTYMEAVGSLLGKGQVWFCGLCQYVNLIGTAIGYTITASISAAALYKANCFHSKGHS
          CYRS.DAV.GKRNYTYMEAV.S.LG.GQVWFCGLCQYVNL.GTAIGYTITAS.SAAALYKANCFH..GHS
Retrocopy CYRSGDAVAGKRNYTYMEAVESYLGSGQVWFCGLCQYVNLVGTAIGYTITASTSAAALYKANCFHKGGHS

Parental  ADCGVYTTMYMVVFGISQIVFSQLPNLHEMAWLSILAAVMSFSYATIGVGLSLAQTITGPTGKTTIGGTQ
          ADCGVYTTMYMVVFG.SQ.VFSQLPNLHEMAWLSILAAVMSFSY.TIGVGLSLAQTI.GPTGKTT.GGT.
Retrocopy ADCGVYTTMYMVVFGVSQVVFSQLPNLHEMAWLSILAAVMSFSYSTIGVGLSLAQTISGPTGKTTMGGTA

Parental  IGVDV-TSAQKIWLTLQALGNIAFAYSYSMVLIEIQDTVKAPPAENKTMRKANLMGVSTTTAFYMLCGCL
          IGVDV..SAQKIWLTLQALGNIAFAYSYSMVLIEIQDTV.APPAENKTMRKANLMGVSTTTAFYMLCGCL
Retrocopy IGVDVASSAQKIWLTLQALGNIAFAYSYSMVLIEIQDTVRAPPAENKTMRKANLMGVSTTTAFYMLCGCL

Parental  GYSAFGNDAPGNMLTGFGFYEPYWLIDFANVCIVVHLVGAYQVYCQPIYAAVESWAAGRWPDSEFVVRQY
          GY.AFGN.APGNMLTGFGFYEP.WLIDFANVCIVVHLVGAYQVYCQPIYAAVESWAA.RWP.S.FVVRQY
Retrocopy GYAAFGNAAPGNMLTGFGFYEPFWLIDFANVCIVVHLVGAYQVYCQPIYAAVESWAAARWPGSDFVVRQY

Parental  HPF-SGKFSLNMFRLVWRTAFVIVSTVLAISLPFFNDILGLLGALGFWPLTVYFPVEMYISQSKMKKYSG
          HPF....F..NMFR.V.RTAFV.VSTVLAI.LPFFNDILGLLGALGFWPLTVYFPVEMYI.QSK.K..S.
Retrocopy HPFGADRFGVNMFRMVGRTAFVVVSTVLAILLPFFNDILGLLGALGFWPLTVYFPVEMYIRQSKVKRSSW

Parental  KWVALQTLSFACFAVTVAVTVASIQGITQSLKNYVPFKTKL
          KWVALQ.LSF.CFAVTV.VTVAS.QGITQSLKNYVPFKT.L
Retrocopy KWVALQSLSFVCFAVTVGVTVASVQGITQSLKNYVPFKTRL

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_40 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_7AS_26CAC27FF	1 retrocopy	retro_taes_40 ,