RetrogeneDB ID: retro_taes_190

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_3B_scaff_10476233:709..1276(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_6BL_22515EB16
• Aliases: None
• Description: None

Sequence

>retro_taes_190
ATGGCCTTGAACGATGGCCTCGCCAGGTTCAGGCTGCAGCAGGAGAGGAATCAGACGATTCTGTCCACCATCGCCGCAAC
CAAAACCTCTGCATCATCATCCACCAATCCGTCCCGGCACCGGCAGCAACCCGCTCCAACTCCAAGGCCGGCGGCTAAGC
CATCACCGTCCGCGCCTGCTACTCTCAGATTCTCCGACGACACGGCGCGGCTACAGAAGATCAACGAAGTGAGGACGTCC
ACCGTCGGATCACAGCTCAAAAAGGTAATCCACCTGCTCGAGGCGACGAGGGAAGCTCTTACGTCGCGTCAGATCAAGGA
ACAGATCTACGTTGACATCGACGGCAACAACGACGTCGCCGAGAGCCTGAGGAACAACGCCAAGGTGCGCTTCGACGGGC
GGCGCTACTCCTACAAGCCCACGCACGACCTGAAGGCCAAAGGCGAGCTGCTGACACTGATCAAGAGCTTGCCGGACGGT
CTCCCGGTTTCGGAGGTGAAGGACGCCTATCCAGCCGTGCACGACGACCTGCAGGCCCTGAAATCTTCGGGTGATATATA
TCTGCTA

Alignment

ORF - retro_taes_190 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.38 %
• Parental protein coverage: 64.18 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MDLKDSLSRFKQQQERCQSSLASIAASQ----ASTTKPKHRAQPINAPSAPAR--PAQP--IKFSNDTER
          M.L.D.L.RF..QQER.Q..L..IAA.......ST....HR.QP...P...A...P..P....FS.DT.R
Retrocopy MALNDGLARFRLQQERNQTILSTIAATKTSASSSTNPSRHRQQPAPTPRPAAKPSPSAPATLRFSDDTAR

Parental  LQHINSIRKSPVGAQIKLVIELLYKTRQAFTAEQINDATYVDINGNKAVFDSLRNNLKVHYDGRRFSYKS
          LQ.IN..R.S.VG.Q.K.VI.LL..TR.A.T..QI....YVDI.GN..V..SLRNN.KV..DGRR.SYK.
Retrocopy LQKINEVRTSTVGSQLKKVIHLLEATREALTSRQIKEQIYVDIDGNNDVAESLRNNAKVRFDGRRYSYKP

Parental  KHDLEGKDQLLDLIRCHQEGLAVVEVKDAYPSVLEDLQALKAAGEVWLL
          .HDL..K..LL.LI.....GL.V.EVKDAYP.V..DLQALK..G...LL
Retrocopy THDLKAKGELLTLIKSLPDGLPVSEVKDAYPAVHDDLQALKSSGDIYLL

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_190 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_6BL_22515EB16	3 retrocopies	retro_taes_124, retro_taes_189, retro_taes_190 ,