RetrogeneDB ID: retro_taes_76

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DL_scaff_14450414:320..1010(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DL_1ECCF80D8
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_7DL_98846F89F1
• Aliases: None
• Description: None

Sequence

>retro_taes_76
ATGGCGGCCCAGGTCAGCAAGAAGCGCAAGTTCGTCGCCGATGGCGTCTTTTTCGCAGAGCTCAACGAGCTGCTGACGCG
TGAGCTGGCCGAGGATGGCTACTCAGGCGTGGAGGTGCGCGTCACGCCGATGCGCACCGAGGTGATCATCCGCGCGACCC
GCACGCAGAACGTGCTCGGTGAGAAGGGCCGCCGGATCCGCGAGCTGACTGCCGTCGTGCAGAAGCGGTGGAATTTTTCA
GAGAACTCCGTGGAGCTGTACGCCGAGAAGGTGAACAACCGCGGGCTGTGCGCGGTGGCGCAGTGCGAGTCGCTGCGCTA
CAAGCTGATCGGCGGCCTCGCCGTCCGCCGCGCGTGCTATGGCGTCGTGCGCTTTGTCATGGAGAGCGGTGCCAAGGGCG
TGGAGTGCTGCGTCTCTGGCAAGATCCGCGGCGCGCGCGCCAAGTCGATGAAGTTCACCGACGGCTACATGATCAAGTCC
GGCGAGCCCAAGCGGCAGTACATCGACATGTGCGTGCGGCACGTCGCTCTGCGGCAGGGCATGCTCGGCGTTCGCGTCAC
CATCATGCTGCCGCACGACCCGACGGGCAAGACCGGCCCCAAGACGCCGCTGCCCGACCAGGTGCTGGTCCACGAGCCCA
AGGAGGAGGCGTACGTGGCGCCGACCACCTCTGTGGATCCCACGAAGTAG

Alignment

ORF - retro_taes_76 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.99 %
• Parental protein coverage: 99.56 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MATQISKKKKFVSDGVFYAELNEMLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEKGRRIRELT
          MA.Q.SKK.KFV.DGVF.AELNE.LTRELAEDGYSGVEVRVTPMRTE.IIRATRTQNVLGEKGRRIRELT
Retrocopy MAAQVSKKRKFVADGVFFAELNELLTRELAEDGYSGVEVRVTPMRTEVIIRATRTQNVLGEKGRRIRELT

Parental  SVVQKRFNFPENGVELYAEKVVNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFVMESGAKGCEVIVSG
          .VVQKR.NF.EN.VELYAEKV.NRGLCA.AQ.ESLRYKL.GGLAVRRACYGV.RFVMESGAKG.E..VSG
Retrocopy AVVQKRWNFSENSVELYAEKVNNRGLCAVAQCESLRYKLIGGLAVRRACYGVVRFVMESGAKGVECCVSG

Parental  KLRAQRAKSMKFKDGYMISSGQPVNEYIDAAVRHVLLRQGVLGIKVKIMLDWDPKGKLGPTTPLPDLVTI
          K.R..RAKSMKF.DGYMI.SG.P...YID..VRHV.LRQG.LG..V.IML..DP.GK.GP.TPLPD.V..
Retrocopy KIRGARAKSMKFTDGYMIKSGEPKRQYIDMCVRHVALRQGMLGVRVTIMLPHDPTGKTGPKTPLPDQVLV

Parental  HPPKEEDELRPPALVE
          H.PKEE....P...V.
Retrocopy HEPKEEAYVAPTTSVD

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_76 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_7DL_98846F89F1	1 retrocopy	retro_taes_76 ,