RetrogeneDB ID: retro_taes_167

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 7D:1026743..1028032(-)
• 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_167
AATCCGGATAAATCCACGCACTTGGAAACTGCTAAGAGGTACGTGTTCGACAGAGAAATTGATTTTGTTAACTTGAGGTC
TGAAAAATATGCAGAAAGCAGCTGCATTCCTACCATGGAGGATGCCACTCCTGAAGAAGATGCCCACCGCAGGGACCTAA
CAATTAATAGTTTATTCTTCAATATCAACGACAACATTTTGGAAGATTTTACTGAAAGAGGTATTGGCGATCTCATCAAG
GGCCTTATTGATACTCCTCTAGATGCCAAAGCTACCTTCTTGGATGACCCACTAAGAGTTCTTCGCGCAATTCGATTTGC
CGTTAGATTCAACTTTACATTATCCGATAGGTTGAAAGAAGCTGCTTCGGACGAAAAGGTGAAGTTGGAACTTGCTTGCA
AGATCAGCAAAGAACGTGTTGGGAAGGAGATTGATCTTATGATGTCAGGCCAACACCCAGCTGATGCAATGTCTTACATT
CGTGATCTGGGGCTATTTTTTATTGCATTTGCATTCCCCAAATATTGCAACCCTCCAATTTTTGACAATTGTGATCGGTG
TTGTGTTTCACACATAGAATCAGCTTGGAACTTTGTGATTTCTCTGCACAGCGGTGATTCTCATCCCATGCTGCTGGATG
AAGAGGAAAAGCTTTACCTCTACAGTGCACCCTTTTTTCCCCTCCGAAAGATGTTCTACTTGAATAAAAATCTAAGAAGA
TTGCTGTCACTAGCTATATTATTCAGGAATCATTAAAGCTGCCAGCATGTGTTGCTAAATCGGTTCTCGACGTGCATGTT
GCCAGCGGAAAATTTGCTGATCTAGTGCTCCTCTTTGAATCGAATGTCGCTTCGCGAGCTGTCAGGGAGGAGGTGGAAGC
TGTATATCATGATATACCAATGGACACATGGAAGCGTGTTTATGCAGAAGTCGTACTTAATGAAATAAAGGACTTATGGC
GGGTGGCACTTGCTATATCCATTATCTTTCATCCAGAAGCTGAAAGTGCTGGCGGCACACTCAGCCAGCAGCAGGATAAG
CTGCATCGGAGGAAAGAGCAGTACATGAGAGTTGAGCGTTCCATAACTGATCTAGGTCTCAGTGAGGTGTGGAAGTTGGA
GCCGTTGGTTAATGGCAACATCATAATGCGAATTCTGCAGAAGTCAGAAAGTCCACTAATCGGAGAATGGAAAAAACGTG
TGTTCAAGTGGCAGCTTGCGCATCCTGAAGGAAGCAGGGATGACTGCGTCGATTGGTTGACAGGATCGCAATCAAAACGC
CAGAAACTA

Alignment

ORF - retro_taes_167 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.45 %
• Parental protein coverage: 73.52 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NPDQSKHLETARMLIYGIWIDFVNLRSEKYAENSRIPTVEIGTAKEDALRRDLTINSLFFNINTKSVEDL
          NPD.S.HLETA........IDFVNLRSEKYAE.S.IPT.E..T..EDA.RRDLTINSLFFNIN....ED.
Retrocopy NPDKSTHLETAKRYVFDREIDFVNLRSEKYAESSCIPTMEDATPEEDAHRRDLTINSLFFNINDNILEDF

Parental  TGRGLEDLKKGLIDTPLPAKSTFLDDPLRVLRAIRFAARFSFTLAEDLKEAASDEKVKSELGSKISRERI
          T.RG..DL.KGLIDTPL.AK.TFLDDPLRVLRAIRFA.RF.FTL...LKEAASDEKVK.EL..KIS.ER.
Retrocopy TERGIGDLIKGLIDTPLDAKATFLDDPLRVLRAIRFAVRFNFTLSDRLKEAASDEKVKLELACKISKERV

Parental  GHEVDLMMSDKHPVNALRYIRDLGLFYVVFAFPEKLEPPALDKHDWLCVSHLEAAWNLAHSIGRSVFSGG
          G.E.DLMMS..HP..A..YIRDLGLF...FAFP....PP..D..D..CVSH.E.AWN...S......SG.
Retrocopy GKEIDLMMSGQHPADAMSYIRDLGLFFIAFAFPKYCNPPIFDNCDRCCVSHIESAWNFVISL----HSGD

Parental  SDSKSQDEQQRLCLYSALFTPVRNMFYMDK-KSKKVPVVSYIIRDSLKLKASDADTIVNIHVASEKFAEL
          S.....DE...L.LYSA.F.P.R.MFY..K.KSKK..V.SYII..SLKL.A..A......HVAS.KFA.L
Retrocopy SHPMLLDEEEKLYLYSAPFFPLRKMFYLNK<KSKKIAVTSYIIQESLKLPACVAKSVLDVHVASGKFADL

Parental  ILLLESNENLETVKEKLDDEYLEIPTDLVKHVFAGLILREIKGFWRVALFISILVYPEVGNASDSLG-KQ
          .LL.ESN.....V.E.....Y..IP.D..K.V.A...L.EIK..WRVAL.ISI...PE...A...L...Q
Retrocopy VLLFESNVASRAVREEVEAVYHDIPMDTWKRVYAEVVLNEIKDLWRVALAISIIFHPEAESAGGTLSQQQ

Parental  DELDKRKERYISVERSITNLDLDGVWKMKPLLDGKAIMGVMQVKSGGPLIGKWQQRLVKWQLAHPQGSME
          D.L..RKE.Y..VERSIT.L.L..VWK..PL..G..IM...Q.KS..PLIG.W..R..KWQLAHP.GS..
Retrocopy DKLHRRKEQYMRVERSITDLGLSEVWKLEPLVNGNIIMRILQ-KSESPLIGEWKKRVFKWQLAHPEGSRD

Parental  ECMEWMKQSEQQSKRQKI
          .C..W...S..QSKRQK.
Retrocopy DCVDWLTGS--QSKRQKL

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_167 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,