RetrogeneDB ID: retro_taes_198

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4BL_scaff_7005623:3580..4618(-)
• 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_198
GTTGCACCACCGAAGAAAGGTGAAGTATTAATCAAGATCTCCCATACTGGTGTGTGTCATACAGACGCATTTACTTTATC
TGGCGATGATCCTGAAGGCGTTTTTCCGGCTATTCTCGGGCATGAAGGTGCTGGTGTTGTAGTTGAGGTTGGTGAAGGCG
TGACTAGCGTCAAACCAGGTGATCATGTTATTCCACTTTACACTGCTGAATGTGGCGAGTGCGTATTCTGTAAATCTGGA
AAATCGAACTTGTGTATTTCCGTTCGCGAAACTCAAGGTAGAGGCGTAATGCCAGATGGTACCACTCGCTTTTCCTACAA
TGGTCAACCGATTTACCACTATATGGGCTGCTCAACGTTCAGTGAATACACTGTAGTGGCAGAAGTATCATTGGCTAAAA
TCAATCCTGAAGCCAATCACGAACATGTCTGCTTACTGGGTTGTGGGGTAACAACCGGTATCGGTGCAGTACATAACACG
GCTAAAGTACAAGAAGGTGATAGTGTTGCGGTCTTTGGTTTAGGTGGTATTGGTTTGGCAGTCGTACAAGCCGCACGTCA
AGCTAAAGCAGGGCGTATTATTGTGGTTGACATGAATCCAGATAAATTTGCGCTGGCAAAAGAGTTTGGTGCAACGGACT
TCTTGAACCCTAAAGACTACGATAAACCAATCCAGCAAGTCATTGTCGAAATGACTGGCTGGGGTGTAGATCATTCATTT
GAATGTATTGGCAACGTGAATGTAATGCGTGCAGCCCTTGAAAGTGCACACCGTGGCTGGGGACAATCCGTAATTATTGG
TGTAGCTGGCGCAGGTCAGGAAATCTCTACCCGTCCATTCCAACTGGTTACTGGTCGTAAATGGCTAGGTTCTGCCTTTG
GTGGCGTAAAAGGTCGTACGCAACTTCCAGGAATGGTTGAAGATGCCATGAAAGGTAAAATTCAATTAGAACCATTTGTG
ACACATACGATGGGCTTGGATCAGATCAATGAAGCCTTTGATCTAATGCATGAAGGTAAGTCAATTCGTACTGTCATT

Alignment

ORF - retro_taes_198 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.11 %
• Parental protein coverage: 91.08 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VAPPQAGEVRIKILSTALCHTDYYTWSGKDPEGLFPCILGHEAAGIVESVGEGVTDVQPGDHVIPCYQAE
          VAPP..GEV.IKI..T..CHTD..T.SG.DPEG.FP.ILGHE.AG.V..VGEGVT.V.PGDHVIP.Y.AE
Retrocopy VAPPKKGEVLIKISHTGVCHTDAFTLSGDDPEGVFPAILGHEGAGVVVEVGEGVTSVKPGDHVIPLYTAE

Parental  CKDCKMCNSGKTNLCGKVRGATGVGVMMSDRKSRFSVNGKPIYHFMGTSTFSQYTVVHDVSVAKINPQAP
          C..C..C.SGK.NLC..VR...G.GVM..D...RFS.NG.PIYH.MG.STFS.YTVV..VS.AKINP.A.
Retrocopy CGECVFCKSGKSNLCISVRETQGRGVM-PDGTTRFSYNGQPIYHYMGCSTFSEYTVVAEVSLAKINPEAN

Parental  LDKVCLLGCGVSTGLGAVWNTAKVEAGSIVAVFGLGTVGLAVAEGAKSAGASRIIGIDIDTKKFDVAKNF
          ...VCLLGCGV.TG.GAV.NTAKV..G..VAVFGLG..GLAV...A..A.A.RII..D....KF..AK.F
Retrocopy HEHVCLLGCGVTTGIGAVHNTAKVQEGDSVAVFGLGGIGLAVVQAARQAKAGRIIVVDMNPDKFALAKEF

Parental  GVTEFVNPKDHDKPIQQVLVDLTDGGVDYSFECIGNVSIMRAALECCHKGWGTSVVVGVAASGQEIATRP
          G.T.F.NPKD.DKPIQQV.V..T..GVD.SFECIGNV..MRAALE..H.GWG.SV..GVA..GQEI.TRP
Retrocopy GATDFLNPKDYDKPIQQVIVEMTGWGVDHSFECIGNVNVMRAALESAHRGWGQSVIIGVAGAGQEISTRP

Parental  FQLVTGRVWKGTAFGGFKSRSQVPWLVEKYMNKEIKVDEYITHNMNLTDINKAFDLLHEGGCLRCVL
          FQLVTGR.W.G.AFGG.K.R.Q.P..VE..M...I......TH.M.L..IN.AFDL.HEG...R.V.
Retrocopy FQLVTGRKWLGSAFGGVKGRTQLPGMVEDAMKGKIQLEPFVTHTMGLDQINEAFDLMHEGKSIRTVI

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_198 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 ,