RetrogeneDB ID: retro_taes_85

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_1AS_scaff_3239567:87..945(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_1AS_24D49363B
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_7DL_961822B36
• Aliases: None
• Description: None

Sequence

>retro_taes_85
ATGTTCAAGTACGACTCCACTCACGGTAGATACGCTGGTGAAGTTTCCCACGATGACAAGCACATCATTGTCGATGGTAA
GAAGATTGCTACTTACCAAGAAAGAGACCCAGCTAACTTGCCATGGGGTTCTTCCAACGTTGACATCGCCATTGACTCCA
CTGGTGTTTTCAAGGAATTAGACACTGCTCAAAAGCACATTGACGCTGGTGCCAAGAAGGTTGTTATCACTGCTCCATCT
TCCACCGCCCCAATGTTCGTCATGGGTGTTAACGAAGAAAAATACACTTCTGACTTGAAGATTGTTTCCAACGCTTCTTG
TACCACCAACTGTTTGGCTCCATTGGCCAAGGTTATCAACGATGCTTTCGGTATTGAAGAAGGTTTGATGACCACTGTCC
ACTCTTTGACTGCTACTCAAAAGACTGTTGACGGTCCATCCCACAAGGACTGGAGAGGTGGTAGAACCGCTTCCGGTAAC
ATCATCCCATCCTCCACCGGTGCTGCTAAGGCTGTCGGTAAGGTCTTGCCAGAATTGCAAGGTAAGTTGACCGGTATGGC
TTTCAGAGTCCCAACCGTCGATGTCTCCGTTGTTGACTTGACTGTCAAGTTGAACAAGGAAACCACCTACGATGAAATCA
AGAAGGTTGTTAAGGCTGCCGCTGAAGGTAAGTTGAAGGGTGTTTTGGGTTACACCGAAGACGCTGTTGTCTCCTCTGAC
TTCTTGGGTGACTCTCACTCTTCCATCTTCGATGCTTCCGCTGGTATCCAATTGTCTCCAAAGTTCGTCAAGTTGGTCTC
CTGGTACGACAACGAATACGGTTACTCTACCAGAGTTGTCGACTTGGTTGAACACGTT

Alignment

ORF - retro_taes_85 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.06 %
• Parental protein coverage: 85.46 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MFKYDTVHGHWKHSDIKLKDDKTLLFGEKPVTVFGVRNPEEIPWGEAGADYVVESTGVFTDKDKAAAHLK
          MFKYD..HG..........DDK......K.......R.P...PWG....D....STGVF...D.A..H..
Retrocopy MFKYDSTHG--RYAGEVSHDDKHIIVDGKKIATYQERDPANLPWGSSNVDIAIDSTGVFKELDTAQKHID

Parental  GGAKKVVISAPSKDAPMFVVGVNEDKYTSDVNIVSNASCTTNCLAPLAKIINDNFGIIEGLMTTVHAITA
          .GAKKVVI.APS..APMFV.GVNE.KYTSD..IVSNASCTTNCLAPLAK.IND.FGI.EGLMTTVH..TA
Retrocopy AGAKKVVITAPSSTAPMFVMGVNEEKYTSDLKIVSNASCTTNCLAPLAKVINDAFGIEEGLMTTVHSLTA

Parental  TQKTVDGPSSKDWRGGRAASFNIIPSSTGAAKAVGKVLPELNGKLTGMSFRVPTVDVSVVDLTVRTEKAA
          TQKTVDGPS.KDWRGGR.AS.NIIPSSTGAAKAVGKVLPEL.GKLTGM.FRVPTVDVSVVDLTV...K..
Retrocopy TQKTVDGPSHKDWRGGRTASGNIIPSSTGAAKAVGKVLPELQGKLTGMAFRVPTVDVSVVDLTVKLNKET

Parental  SYDDIKKAIKAASEGKLKGIMGYVEEDLVSTDFVGDSRSSIFDAKAGIALNDHFVKLVSWYDNEWGYSNR
          .YD.IKK..KAA.EGKLKG..GY.E...VS.DF.GDS.SSIFDA.AGI.L...FVKLVSWYDNE.GYS.R
Retrocopy TYDEIKKVVKAAAEGKLKGVLGYTEDAVVSSDFLGDSHSSIFDASAGIQLSPKFVKLVSWYDNEYGYSTR

Parental  VVDLIRHM
          VVDL..H.
Retrocopy VVDLVEHV

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_85 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_7DL_961822B36	2 retrocopies	retro_taes_22, retro_taes_85 ,