RetrogeneDB ID: retro_taes_189

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_3AS_scaff_3442757:3380..3940(-)
• 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_189
ATGGCTCTGAACGATGGCCTCGCCAGGTTCAGGCTGCAGCAGGAGAGGAACCAGGCGATTCTGTCAACCGTCGCCGCTAC
CAGAACCTCTTCATCATCATCCACCAGAACGTCCCAGCAGCAGCCCGCTCCAACTCCAAGGCCGGCGGCTAAGCCATCAC
CGTCCGCGCCCGCTGCCGTCAGGTTCTCCGATGACACGGCGCGGCTACAGAAGATCAACGAAGTGAGGACGTCCACCGTC
GGATCACAGCTCAAAAAGGTAATCGAGCTGCTCGAGAAGACGAGGGATGCTCTTACGGCGCATCAGATCAACGAACAGAT
CTACGTTGACATCGACGGTAACAACGACGTCGCCGACAGCCTGAGGAACAACGCCAAGGTGCGCTTCGACAGGCGGCGCT
ACTCCTACAAGCCCACGCACGACCTGAAGGCCAAAGGCGAGCTGCTGACACTGATCAAGAGCTTGCCGGACGGCCTCCTG
GTCTCGGAGGTGAAGGACACGTATCCAGCCGTGCACGACGACCTGCAGGCCCTGAATCCTCGGGGGACGTCTATCTGCTA

Alignment

ORF - retro_taes_189 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.13 %
• Parental protein coverage: 64.18 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MDLKDSLSRFKQQQERCQSSLASIAASQASTTKPKHRAQ----PINAPSAPARPAQP--IKFSNDTERLQ
          M.L.D.L.RF..QQER.Q..L...AA...S........Q....P...P.A...P..P....FS.DT.RLQ
Retrocopy MALNDGLARFRLQQERNQAILSTVAATRTSSSSSTRTSQQQPAPTPRPAAKPSPSAPAAVRFSDDTARLQ

Parental  HINSIRKSPVGAQIKLVIELLYKTRQAFTAEQINDATYVDINGNKAVFDSLRNNLKVHYDGRRFSYKSKH
          .IN..R.S.VG.Q.K.VIELL.KTR.A.TA.QIN...YVDI.GN..V.DSLRNN.KV..D.RR.SYK..H
Retrocopy KINEVRTSTVGSQLKKVIELLEKTRDALTAHQINEQIYVDIDGNNDVADSLRNNAKVRFDRRRYSYKPTH

Parental  DLEGKDQLLDLIRCHQEGLAVVEVKDAYPSVLEDLQAL-KAAGEVWLL
          DL..K..LL.LI.....GL.V.EVKD.YP.V..DLQAL....G.V.LL
Retrocopy DLKAKGELLTLIKSLPDGLLVSEVKDTYPAVHDDLQAL<ESSGDVYLL

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_189 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.

---

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,