RetrogeneDB ID: retro_taes_178

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_2BL_scaff_8001441:16154..17762(-)
• 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_25853B117
• Aliases: None
• Description: None

Sequence

>retro_taes_178
TTTGACGTGGTGATCGTCGGCGCCGGCGGCTCCGGCATGCGCGCCTCGCTGCAACTGGCGCGTGCCGGCCTGAACGTCGC
CGTGCTCTCCAAGGTGTTCCCGACGCGATCACACACCGTGGCAGCCCAGGGCGGCATTGGCGCTTCGCTCGGCAACATGT
CCGAAGACAACTGGCACTACCACTTCTACGACACCGTCAAGGGCTCCGACTGGCTCGGCGACCAGGACGCGATTGAATAC
ATGTGCCGCGAAGCGCCCAAGGTCGTTTATGACCTGGAGCACATGGGCATGCCCTTTGACCGCAACCCCGACGGCACGAT
TTACCAGCGCCCCTTTGGCGGCCACACCGCCAACTACGGCGAGAAAGCGGTGCAACGCGCCTGCGCCGCAGCTGACCGCA
CCGGCCATGCCATGCTGCACACGCTGTACCAGCAAAACGTCAAGGAAAAAACCAGCTTCTTCGTCGAGTGGCTGGCGATG
GACCTGATTCGTGATGCCGACGGCGACGTGGTGGGTGTCAGCGCCATCGAGATGGAAACCGGTGACGTGCATATTTTTGA
AGCCAAGACGACGCTGCTGGCCACCGGCGGCGCTGGTCGTATTTTTGCTGCATCGACCAACGCTTTCATCAACACGGGCG
ACGGCCTGGGCATGGCGGCACGCGCCGGCATTCCGCTCGAAGACATGGAGTTCTGGCAGTTTCACCCGACCGGCGTGCAT
GGCGCCGGTGTGCTGCTGACTGAAGGCTGCCGCGGCGAAGGTGCCATTTTGCGCAACAGCAATGGCGAACGTTTCATGGA
GCGTTACGCGCCCGCCTACAAGGACCTGGCGCCGCGCGACTATGTCTCGCGCTGCATGGACCAGGAGATCAAGGAAGGCC
GTGGCTGTGGTCCGAACAAGGACTACATCAACCTCGACATGACGCATCTGGGCGCCGAGACCATCATGAAGCGCCTGCCT
TCGGTGTTCGAGATCGGTCATAACTTTGCCAACGTCGATATCACCAAGGAGCCGATTCCCGTGGTGCCCACCATCCATTA
CCAGATGGGCGGCATACCGACCAACATCCACGGCCAGGTGGTCACACAAAACGCTGAGAACAAAAGCGAGGTCGTCAATG
GCCTTTACGCGGTCGGCGAATGCGCCTGCGTTAGCGTGCACGGCGCTAACCGCCTGGGCACCAATTCATTGCTCGACCTG
CTGGTGTTTGGCCGCGCGGCCGGCAACCACATTGTCGAGTTCAACAAGACGACTTCGCACAAGCCATTGCCTGCCGACGC
GGCCGACGCCACACTGGCACGTATCGCGCACCTGGACAACGCGACCACCGGTGAATACGCACAGGACGTAGCCAATGACA
TCCGCGCAGCGATGCAGCAGCATGCCGGCGTCTTCCGCACCCAGGCCATCATGGACGAAGGGGTCACCAAAATCGCCGCC
CTGCGCGAACGCGTCAACAACATCGGCCTCAAAGACAAGTCAAAAATCTTCAACACAGCGCGCATTGAGGCGCTGGAAGT
CGAAAACCTGATCGAGGCCGCGCAAGCCACCATCGTGTCGGCCGCTGCCCGCAAGGAAAGCCGCGGTGCACATTCGGTCG
ATGACTAT

Alignment

ORF - retro_taes_178 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.51 %
• Parental protein coverage: 86.63 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YDAVVVGAGGAGLRAAIGLSEHGFNTACITKLFPTRSHTVAAQGGINAALGNMSEDDWRWHMYDTVKGSD
          .D.V.VGAGG.G.RA...L...G.N.A...K.FPTRSHTVAAQGGI.A.LGNMSED.W..H.YDTVKGSD
Retrocopy FDVVIVGAGGSGMRASLQLARAGLNVAVLSKVFPTRSHTVAAQGGIGASLGNMSEDNWHYHFYDTVKGSD

Parental  WLGDQDAIQYMCREAPKAVIELENYGLPFSRTEDGKIYQRAFGGQSLDFGKGGQAYRCACAADRTGHAML
          WLGDQDAI.YMCREAPK.V..LE..G.PF.R..DG.IYQR.FGG.....G.......CA.AADRTGHAML
Retrocopy WLGDQDAIEYMCREAPKVVYDLEHMGMPFDRNPDGTIYQRPFGGHTANYGEKAVQRACA-AADRTGHAML

Parental  HTLYGQAMKHNTQFFVEYFALDLIMDKEGTCQGVIALNMEDGTLHRFRSTNTILATGGYGRAYFSATSAH
          HTLY.Q..K..T.FFVE..A.DLI.D..G...GV.A..ME.G..H.F....T.LATGG.GR.....T.A.
Retrocopy HTLYQQNVKEKTSFFVEWLAMDLIRDADGDVVGVSAIEMETGDVHIFEAKTTLLATGGAGRIFAASTNAF

Parental  TCTGDGNAMVARAGLPLQDLEFVQFHPTGIYGAGCLITEGSRGEGGILRNSEGERFMERYAPTAKDLASR
          ..TGDG..M.ARAG.PL.D.EF.QFHPTG..GAG.L.TEG.RGEG.ILRNS.GERFMERYAP..KDLA.R
Retrocopy INTGDGLGMAARAGIPLEDMEFWQFHPTGVHGAGVLLTEGCRGEGAILRNSNGERFMERYAPAYKDLAPR

Parental  DVVSRSMTMEIREGRGVGPMKDHLYLHLNHLPPEVLKERLPGISETAAIFAGVDVTKEPIPVLPTVHYNM
          D.VSR.M..EI.EGRG.GP.KD...L...HL..E....RLP...E....FA.VD.TKEPIPV.PT.HY.M
Retrocopy DYVSRCMDQEIKEGRGCGPNKDYINLDMTHLGAETIMKRLPSVFEIGHNFANVDITKEPIPVVPTIHYQM

Parental  GGIPTNYHGQVVDIKGDNPDTVIPGLMAAGEAACASVHGANRLGANSLLDIVVFGRACANRVAEISKPGE
          GGIPTN.HGQVV.....N...V..GL.A.GE.AC.SVHGANRLG.NSLLD..VFGRA..N...E..K...
Retrocopy GGIPTNIHGQVVTQNAENKSEVVNGLYAVGECACVSVHGANRLGTNSLLDLLVFGRAAGNHIVEFNKT-T

Parental  TQKPLEKDAGEKTIAWLDKLRNANGSLPTSKIRLNMQRIMQNNAAVFRTQETLTEGCELISEAQKSFHDV
          ..KPL..DA...T.A....L.NA................MQ..A.VFRTQ....EG...I..........
Retrocopy SHKPLPADAADATLARIAHLDNATTGEYAQDVANDIRAAMQQHAGVFRTQAIMDEGVTKIAALRERVNNI

Parental  KLSDRSLIWNSDLIETIELENLLINACITMHSAEARQESRGAHAREDF
          .L.D.S.I.N...IE..E.ENL...A..T..SA.AR.ESRGAH...D.
Retrocopy GLKDKSKIFNTARIEALEVENLIEAAQATIVSAAARKESRGAHSVDDY

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_178 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_5BL_25853B117	1 retrocopy	retro_taes_178 ,