RetrogeneDB ID: retro_taes_183

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_2BL_scaff_8084482:138..1230(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_6DL_FD8A6A45F
• Aliases: None
• Description: None

Sequence

>retro_taes_183
CGTGCTGCTGTTGCGTTTGGTCCTGGTCAACCTCTTCAAATTGTTGAGGTTGATGTTGCACCACCGAAGAAAGGTGAAGT
ATTAATCAAGATCTCCCATACTGGTGTGTGTCATACAGACGCATTTACTTTATCTGGCGATGATCCTGAAGGCGTTTTTC
CGGCTATTCTCGGGCATGAAGGTGCTGGTGTTGTAGTTGAGGTTGGTGAAGGCGTGACTAGCGTCAAACCAGGTGATCAT
GTTATTCCACTTTACACTGCTGAATGTGGCGAGTGCGTATTCTGTAAATCTGGAAAATCGAACTTGTGTATTTCCGTTCG
CGAAACTCAAGGTAGAGGCGTAATGCCAGATGGTACCACTCGCTTTTCCTACAATGGTCAACCGATTTACCACTATATGG
GCTGCTCAACGTTCAGTGAATACACTGTAGTGGCAGAAGTATCATTGGCTAAAATCAATCCTGAAGCCAATCACGAACAT
GTCTGCTTACTGGGTTGTGGGGTAACAACCGGTATCGGTGCAGTACATAACACGGCTAAAGTACAAGAAGGTGATAGTGT
TGCGGTCTTTGGTTTAGGTGGTATTGGTTTGGCAGTCGTACAAGCCGCACGTCAAGCTAAAGCAGGGCGTATTATTGTGG
TTGACATGAATCCAGATAAATTTGCGCTGGCAAAAGAGTTTGGTGCAACGGACTTCTTGAACCCTAAAGACTACGATAAA
CCAATCCAGCAAGTCATTGTCGAAATGACTGGCTGGGGTGTAGATCATTCATTTGAATGTATTGGCAACGTGAATGTAAT
GCGTGCAGCCCTTGAAAGTGCACACCGTGGCTGGGGACAATCCGTAATTATTGGTGTAGCTGGCGCAGGTCAGGAAATCT
CTACCCGTCCATTCCAACTGGTTACTGGTCGTAAATGGCTAGGTTCTGCCTTTGGTGGCGTAAAAGGTCGTACGCAACTT
CCAGGAATGGTTGAAGATGCCATGAAAGGTAAAATTCAATTAGAACCATTTGTGACACATACGATGGGCTTGGATCAGAT
CAATGAAGCCTTTGATCTAATGCATGAAGGTAAGTCAATTCGTACTGTCATT

Alignment

ORF - retro_taes_183 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.92 %
• Parental protein coverage: 95.8 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KAAVAYEANKPLVVEDVQVAPPQAGEVRIKILSTALCHTDYYTWSGKDPEGLFPCILGHEAAGIVESVGE
          .AAVA.....PL....V.VAPP..GEV.IKI..T..CHTD..T.SG.DPEG.FP.ILGHE.AG.V..VGE
Retrocopy RAAVAFGPGQPLQIVEVDVAPPKKGEVLIKISHTGVCHTDAFTLSGDDPEGVFPAILGHEGAGVVVEVGE

Parental  GVTDVQPGDHVIPCYQAECKDCKMCNSGKTNLCGKVRGATGVGVMMSDRKSRFSVNGKPIYHFMGTSTFS
          GVT.V.PGDHVIP.Y.AEC..C..C.SGK.NLC..VR...G.GVM..D...RFS.NG.PIYH.MG.STFS
Retrocopy GVTSVKPGDHVIPLYTAECGECVFCKSGKSNLCISVRETQGRGVM-PDGTTRFSYNGQPIYHYMGCSTFS

Parental  QYTVVHDVSVAKINPQAPLDKVCLLGCGVSTGLGAVWNTAKVEAGSIVAVFGLGTVGLAVAEGAKSAGAS
          .YTVV..VS.AKINP.A....VCLLGCGV.TG.GAV.NTAKV..G..VAVFGLG..GLAV...A..A.A.
Retrocopy EYTVVAEVSLAKINPEANHEHVCLLGCGVTTGIGAVHNTAKVQEGDSVAVFGLGGIGLAVVQAARQAKAG

Parental  RIIGIDIDTKKFDVAKNFGVTEFVNPKDHDKPIQQVLVDLTDGGVDYSFECIGNVSIMRAALECCHKGWG
          RII..D....KF..AK.FG.T.F.NPKD.DKPIQQV.V..T..GVD.SFECIGNV..MRAALE..H.GWG
Retrocopy RIIVVDMNPDKFALAKEFGATDFLNPKDYDKPIQQVIVEMTGWGVDHSFECIGNVNVMRAALESAHRGWG

Parental  TSVVVGVAASGQEIATRPFQLVTGRVWKGTAFGGFKSRSQVPWLVEKYMNKEIKVDEYITHNMNLTDINK
          .SV..GVA..GQEI.TRPFQLVTGR.W.G.AFGG.K.R.Q.P..VE..M...I......TH.M.L..IN.
Retrocopy QSVIIGVAGAGQEISTRPFQLVTGRKWLGSAFGGVKGRTQLPGMVEDAMKGKIQLEPFVTHTMGLDQINE

Parental  AFDLLHEGGCLRCVL
          AFDL.HEG...R.V.
Retrocopy AFDLMHEGKSIRTVI

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_183 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
Medicago truncatula	MTR_7g099040	2 retrocopies	retro_mtru_86, retro_mtru_87,
Triticum aestivum	Traes_6DL_FD8A6A45F	4 retrocopies	retro_taes_174, retro_taes_182, retro_taes_183 , retro_taes_198,