RetrogeneDB ID: retro_taes_41

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DL_scaff_14465368:4..907(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DL_FAC46A15C
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_1BL_8DB775116
• Aliases: None
• Description: None

Sequence

>retro_taes_41
ATGGCACCGCTCCCGGAGACCACGGCAGAGGCCGCAGCGGAGGACGGTGGCGGCGACAGCAAGGCCCTGGGCGACGCGTG
GGACTACCGCGGCCGGCCGGCCCTGCGCAGCAGCTCCGGCGGGTGGTCCAGCGCGGCCATGATCCTGGGCGTGGAGCTCA
ACGAGCGGCTCACCACGCTGGGCATCGCGGTGAACCTCGTCACCTACCTCACGGCCACCATGCACCTGGGCAACGCAGCC
TCCGCCAACGCCGTCACCAACTTCCTCGGCACCTCCTTCCTGCTCTGCCTCCTGGGCGGCTTCGTCGCCGACACCTACCT
CGGCCGCTACCTCACCATCGCCATCTCCACGGCCGTGCAGGCCGCCGGCATGACCATCCTCACCGTCTCCACGGCCGCGC
CGGGGCTGCGCCCGGCGCCCTGCAAGGACCCGACGGGCGACGGCAGAGTCCCCGGCTGCGCGCCGCCTACCGGCACGCAG
CTCGCCGTGCTCTACCTGGGGCTCTACCTGACGGCGCTGGGCACGGGCGGGCTCAAGTCGAGCGTGTCGGGGTTCGGGTC
GGACCAGTTCGACGAGTCCCACGCCGGGGAGCGGCGCCGCATGGCGCGCTTCTTCGGCTGGTTCTTCTTCTTCATCAGCC
TGGGGTCCCTCCTCGCCGTCACCGTGCTGGTGTACGTCCAGGACAACGTGGGCCGGCGCTGGGGCTACGGCGCCTGCGTG
GTGGCCATCCTCGCCGGCCTCGGCGTGTTCCTGGCCGGCACGCCCAGGTACCGGTTCAAGAAGCTGGCGGGGAGCCCGCT
GACGCAGATCGCGGCCGTGACCGCGGCGGCCTGGAGGAAGCGCGCGCTGCCGCTGCCGTCCGACCCGTCCATGCTCTACG
ACCTGGACGACGCGGCGGCCGCC

Alignment

ORF - retro_taes_41 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.31 %
• Parental protein coverage: 91.46 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EVLPETVAE-AGKQGAALADAWDYKGRPAARASTGGWGCAAMILGAELFERMTTLGIAVNLVPYMTGTMH
          E...E..AE..G....AL.DAWDY.GRPA.R.S.GGW..AAMILG.EL.ER.TTLGIAVNLV.Y.T.TMH
Retrocopy ETTAEAAAEDGGGDSKALGDAWDYRGRPALRSSSGGWSSAAMILGVELNERLTTLGIAVNLVTYLTATMH

Parental  LGSAAAANTVTNFIGTSFMLCLLGGFIADTYLGRYLTIAVFSAVQATGVMILTISTVAPGLRPAACGDAT
          LG.AA.AN.VTNF.GTSF.LCLLGGF.ADTYLGRYLTIA...AVQA.G..ILT.ST.APGLRPA.C.D.T
Retrocopy LGNAASANAVTNFLGTSFLLCLLGGFVADTYLGRYLTIAISTAVQAAGMTILTVSTAAPGLRPAPCKDPT

Parental  GQS--PDCVPANGTQLGVLYLGLYMTALGTGGLKSSVSGFGSDQFDESDDGERKMMMRFFNWFYFFVSIG
          G....P.C.P..GTQL.VLYLGLY.TALGTGGLKSSVSGFGSDQFDES..GER..M.RFF.WF.FF.S.G
Retrocopy GDGRVPGCAPPTGTQLAVLYLGLYLTALGTGGLKSSVSGFGSDQFDESHAGERRRMARFFGWFFFFISLG

Parental  ALLAVTVLVYVQDNVGRRWGYGVVAVGILCGLGVFLSGTRKYRFKKLVGSPLTQVATVTAAAWRKRSLPL
          .LLAVTVLVYVQDNVGRRWGYG...V.IL.GLGVFL.GT..YRFKKL.GSPLTQ.A.VTAAAWRKR.LPL
Retrocopy SLLAVTVLVYVQDNVGRRWGYGACVVAILAGLGVFLAGTPRYRFKKLAGSPLTQIAAVTAAAWRKRALPL

Parental  P----MLYDVDDKAAA
          P....MLYD.DD.AAA
Retrocopy PSDPSMLYDLDDAAAA

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_41 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_1BL_8DB775116	1 retrocopy	retro_taes_41 ,