RetrogeneDB ID: retro_taes_194

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4AL_scaff_7114889:2038..3334(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_5BL_DA5693099
• Aliases: None
• Description: None

Sequence

>retro_taes_194
AATCCAGACAAATCCAAGCACTTGGAAACTGCTAAGACGTACATGTTCGACAGAGAATTTGATTTTGTTAACCTGAGGTC
TGAAAAATATGCAGAAAGCAGCCGCATTCCCACCATGGAGGGCGCCACTCCTGAAGACGATGCCCACCGCAGGGACCTAA
CAATTAATAGTTTATTCTTCAACATCAACGACAACATTGTGGAAGATTTTACTAGAAGAGGTATTGACGATCTCATCAAG
GGCCTTATTGATACTCCTCTAGATGCCAAAGCTACCTTCTTGGATGACCCACTTAGAGTTCTTTGGGCAATTCGATTTGC
CGCTAGATTCAACTTTACGTTATCGGATAGGTTGAAGGAAGCTGCTTCGGAAAAGGTGAAGTTGGAACTTGCTTGCAAGA
TCAGCAAAGAACGTGTTGGGAAGGAGATTGATCTTATGATGTCAGGCCAACACCCAGCTGCTGCAATGTCTTACATTCGT
GATCTGAGGCTATTTTATACTGCATTTGCTTTCCCCAAATATTGCAACCCTCCAATTTTTGAGAATTGTGATCGGTCTTG
TGTTTCACACATTGAATCAGCTTGGAACTTTGCAGTTTCAGTGCACAGCGGTGATTCTCATCCCATGCTGCTGGATGAAC
AGGAAAAGCTTTACCTCTATAGTGCACTCCTTTCCCCCCTCCGAAAAATGTTCTACTTGAATAAAAAATCTAAGGAGATT
GCTGTCACTAGCTATATTATTGAGGAGTCATTAAAGCTGCCAGCATGTGTTGCTAAATCGGTTCTCGACGTGTATATTGC
CAGCGGAAAATTTGCTGATCTAGTGCTCCTGTTTGAATCAAATGTCGCTTCGCGAGCTGTCAGAGAGGAGGTGGACGATG
CATGTCATAATATACCAATGGACACATGGAAGCGTGTTTATGCAGGAGTCGTACTTAATGAAATAAAGGACTTATGGAGG
GTGGCACTTGCTATATCCATTATCTTTTCTCCAGAAGTTGAAAATGCTGGCGGCACACTCAGGCAGCAGCAGGATGAGCT
GCATCGGAGGAAAGAGCAGTACATGAGAGTTGAGCGTTCCATAACTGATCTAGGTCTCAGTGAGGTGTGGAAGTTGGAGC
CGTTGGTTAATGGCAACATCATAATGCGAATTCTGCAGAAGTCAGAAAGTCCACTGATCGGAGAATGGAAAAAGCGTGTG
TTCAAATGGCAGCTTGCGCATCCTGAAGGAAGCAGGGATGACTGCGTCGATTGGTTGACGGGATCGCAATCGAAACGCCA
GAAAGTAGAATCCAGC

Alignment

ORF - retro_taes_194 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.32 %
• Parental protein coverage: 74.03 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NPDQSKHLETARMLIYGIWIDFVNLRSEKYAENSRIPTVEIGTAKEDALRRDLTINSLFFNINTKSVEDL
          NPD.SKHLETA.........DFVNLRSEKYAE.SRIPT.E..T...DA.RRDLTINSLFFNIN...VED.
Retrocopy NPDKSKHLETAKTYMFDREFDFVNLRSEKYAESSRIPTMEGATPEDDAHRRDLTINSLFFNINDNIVEDF

Parental  TGRGLEDLKKGLIDTPLPAKSTFLDDPLRVLRAIRFAARFSFTLAEDLKEAASDEKVKSELGSKISRERI
          T.RG..DL.KGLIDTPL.AK.TFLDDPLRVL.AIRFAARF.FTL...LKEAAS.EKVK.EL..KIS.ER.
Retrocopy TRRGIDDLIKGLIDTPLDAKATFLDDPLRVLWAIRFAARFNFTLSDRLKEAAS-EKVKLELACKISKERV

Parental  GHEVDLMMSDKHPVNALRYIRDLGLFYVVFAFPEKLEPPALDKHDWLCVSHLEAAWNLAHSIGRSVFSGG
          G.E.DLMMS..HP..A..YIRDL.LFY..FAFP....PP.....D..CVSH.E.AWN.A.S......SG.
Retrocopy GKEIDLMMSGQHPAAAMSYIRDLRLFYTAFAFPKYCNPPIFENCDRSCVSHIESAWNFAVSV----HSGD

Parental  SDSKSQDEQQRLCLYSALFTPVRNMFYMDKKSKKVPVVSYIIRDSLKLKASDADTIVNIHVASEKFAELI
          S.....DEQ..L.LYSAL..P.R.MFY..KKSK...V.SYII..SLKL.A..A........AS.KFA.L.
Retrocopy SHPMLLDEQEKLYLYSALLSPLRKMFYLNKKSKEIAVTSYIIEESLKLPACVAKSVLDVYIASGKFADLV

Parental  LLLESNENLETVKEKLDDEYLEIPTDLVKHVFAGLILREIKGFWRVALFISILVYPEVGNASDSL-GKQD
          LL.ESN.....V.E..DD....IP.D..K.V.AG..L.EIK..WRVAL.ISI...PEV.NA...L...QD
Retrocopy LLFESNVASRAVREEVDDACHNIPMDTWKRVYAGVVLNEIKDLWRVALAISIIFSPEVENAGGTLRQQQD

Parental  ELDKRKERYISVERSITNLDLDGVWKMKPLLDGKAIMGVMQVKSGGPLIGKWQQRLVKWQLAHPQGSMEE
          EL..RKE.Y..VERSIT.L.L..VWK..PL..G..IM...Q.KS..PLIG.W..R..KWQLAHP.GS...
Retrocopy ELHRRKEQYMRVERSITDLGLSEVWKLEPLVNGNIIMRILQ-KSESPLIGEWKKRVFKWQLAHPEGSRDD

Parental  CMEWMKQSEQQSKRQKIECS
          C..W...S..QSKRQK.E.S
Retrocopy CVDWLTGS--QSKRQKVESS

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_194 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 2 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_2BS_4304B3EDD	2 retrocopies	retro_taes_193, retro_taes_196,
Triticum aestivum	Traes_5BL_DA5693099	4 retrocopies	retro_taes_167, retro_taes_194 , retro_taes_195, retro_taes_197,