RetrogeneDB ID: retro_taes_101

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 2A:253670490..253671219(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: TRAES3BF080300020CFD_g
• Aliases: None
• Description: None

Sequence

>retro_taes_101
CCAAAGTCCATTAAGGAATACGTCGAGAGGATTAGAACATTTCGGGGAGTTGGTTCTGCCACTTCCTTCTTCACTGCATC
CAACCAGTCCATAGCAACAGGATTGCTAGAATTGATGATTGAGGTGAAGCTAGAAGTGCCAAATTGGCTAGTGGGCTATG
CTAATCCTGATTATTCTTGTAGGTCTATGGAGCTGGAGTAGGAAGATGAGGAGTATGAGAAGTACAGATATGATATAACT
CGGTCTCTAGCCACGCGCAAGGTTGATAACATCTACGATCTGGCAGATCTTTGTGCGGAATTAGATTGCAAGACTAAGAA
GAAGTCAAGCTCAGGGGACAACATCAAGTGGATGTCTAAAGAGTGCTGCACTGCATTTAGACAACAAGAAGAACACAAGC
TCCTTGAGTTCAATTTCGTCAAGCTTACTCAATAATGTTTTACCCTGGAAAGTTTTGGAAAAACCTATTATCATTTCAAT
TTCGTTGGCGAGATTAAGAATGAATCAGGGATCTAGACTCAAGGGATGTACTTTGCTGAAAGAAAAGCTATATGTGGTGA
GCAGACATATTTTTGTTGTTTGCTAGAGCTGTCAGACAATGGTGAGTGCTACGGATGTCAACACAAGAAGGGGGAGGTAC
GGCATCCAACTAGAGGTGGCTATGAGAGAGCAACACCTGACTATGATTGGCCTTGCGATTCTGGCGACGAAATTAGTGAT
GATGATATT

Alignment

ORF - retro_taes_101 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.2 %
• Parental protein coverage: 51.93 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PKSVEEYVERIRTFARVGSATSFFTESNRSIAKGLLELMIEANLEVPDWLLDYANPDYT-RSVELDSEDE
          PKS..EYVERIRTF..VGSATSFFT.SN.SIA.GLLELMIE..LEVP.WL..YANPDY..RS.EL..EDE
Retrocopy PKSIKEYVERIRTFRGVGSATSFFTASNQSIATGLLELMIEVKLEVPNWLVGYANPDYSCRSMELE*EDE

Parental  ENDKDRYDLARSLASRKIDNIYDLACVWAELNCRRTKQSFDDSRIKTMSKDCCIAFTQQEEYKFLKFYFV
          E..K.RYD..RSLA.RK.DNIYDLA...AEL.C...K.S.....IK.MSK.CC.AF.QQEE.K.L.F.FV
Retrocopy EYEKYRYDITRSLATRKVDNIYDLADLCAELDCKTKKKSSSGDNIKWMSKECCTAFRQQEEHKLLEFNFV

Parental  KVTQHCYSPESYEKTYWHYNFIAKIKSKSGIWTEGIYFAERKLECDVETFCCSFLEPSDDGECYGCQHGE
          K.TQ.C...ES..KTY.H.NF...IK..SGI.T.G.YFAERK..C...T..C..LE.SD.GECYGCQH..
Retrocopy KLTQ*CFTLESFGKTYYHFNFVGEIKNESGI*TQGMYFAERKAICGEQTYFCCLLELSDNGECYGCQHKK

Parental  AKVRHPTRGDYERGTPDHVWLSDGDCEISDDDM
          ..VRHPTRG.YER.TPD..W..D...EISDDD.
Retrocopy GEVRHPTRGGYERATPDYDWPCDSGDEISDDDI

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_101 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	TRAES3BF080300020CFD_g	1 retrocopy	retro_taes_101 ,