RetrogeneDB ID: retro_taes_4

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DL_scaff_14410333:607..1795(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DL_5511F17C1
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_1AL_0C964B45F
• Aliases: None
• Description: None

Sequence

>retro_taes_4
ATGCGCGAGGCCATCTCCATCCACCTTGGTCAGGCCGGCATCCAGGCGGGCAATGCGTGCTGGGAGCTCTACTGCCTCGA
GCACGGCATCCAGCCCGATGGCCAGATGCCGTCCGACAAGACGATCGGCGGCGGCGACGACGCGTTCAACACCTTCTTCT
CCGAGACCGGCTCGGGCAAGCACGTCCCCCGCTGCGTCTTCGTCGACCTCGAGCCGACGGTCGTCGACGAGGTCCGCACG
GGCACCTACCGCCAGCTCTACCACCCCGAGCAGCTGATCTCGGGCAGAGAGGACGCCGCAAACAACTACGCGCGCGGCCA
CTACACCATCGGCAAGGAGATCGTCGACCTCGTCCTCGACCGCATCCGCAAGCTCGCAGACAACTGCACCGGCCTCCAGG
GCTTCCTCGTCTTTCACGCCGTCGGCGGCGGCACCGGCTCCGGCCTGGGCGCCCTCCTCCTCGAGCGCCTGTCGGTCGAC
TACGGGAAAAAGTCGAAGCTCTCCTTCACCATCTACCCGGCGCCCCAGGTCTCGACCGCCATCGTCGAGCCCTACAACTG
TGTCCTCTCGACGCACTCGCTCCTCGAGCACACCGATGTCTCCTTCATGGTCGACAACGAGGCCCTCTACGACATCTGCC
GCCGCAACCTCGACATCGAGCGCCCGACGTACACCAACCTCAACCGCCTGATCGGCCAGATCGTCTCGTCGATCACCGCG
TCGCTCCGCTTCGACGGCGCCCTCAACGTCGACGTCACCGAGTTCCAGACGAACCTCGTGCCGTACCCGCGCATCCACTT
CGTCGTCCCGTCGTACGCGCCCGTCATCTCGGCCGAGAAGGCGTACCACGAGCAGCTCTCCGTCGCCGAGATCACCAACT
CGGCCTTCGAGCCCGCCTCGATGCTCTGCAAGGTCGACCCGCGCCACGGCAAGTACATGGCGGTCTGCCTCATGTACCGC
GGCGACGTCGTCCCCAAGGACGTCAACGCGGCCGTCGCCACCATCAAGACGAAGCGCACCATCCAGTTCGTCGACTGGTG
CCCGACCGGCTTCAAGTGCGGCATCAACTACCAGCCACCCACGGTCGTGCCGGGCGGCGACCTCGCCAAGGTGATGCGCG
CCGTCACGATGATGTCCAACTCGACGTGCATCGCCGAGCTCTACTCGCGCATCGACCACAAGTTCGAC

Alignment

ORF - retro_taes_4 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.37 %
• Parental protein coverage: 87.8 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MRECISIHIGQAGIQVGNACWELYCLEHGIQPDGQMPGDKTVGGGDDAFNTFFSETGAGKHVPRAVFVDL
          MRE.ISIH.GQAGIQ.GNACWELYCLEHGIQPDGQMP.DKT.GGGDDAFNTFFSETG.GKHVPR.VFVDL
Retrocopy MREAISIHLGQAGIQAGNACWELYCLEHGIQPDGQMPSDKTIGGGDDAFNTFFSETGSGKHVPRCVFVDL

Parental  EPTVIDEVRTGAYRQLFHPEQLISGKEDAANNFARGHYTIGKEIVDLCLDRIRKLSDNCTGLQGFLVFNA
          EPTV.DEVRTG.YRQL.HPEQLISG.EDAANN.ARGHYTIGKEIVDL.LDRIRKL.DNCTGLQGFLVF.A
Retrocopy EPTVVDEVRTGTYRQLYHPEQLISGREDAANNYARGHYTIGKEIVDLVLDRIRKLADNCTGLQGFLVFHA

Parental  VGGGTGSGLGSLLLERLSVDYGKKSKLGFTVYPSPQVSTSVVEPYNSVLSTHSLLEHTDVSILLDNEAIY
          VGGGTGSGLG.LLLERLSVDYGKKSKL.FT.YP.PQVST..VEPYN.VLSTHSLLEHTDVS...DNEA.Y
Retrocopy VGGGTGSGLGALLLERLSVDYGKKSKLSFTIYPAPQVSTAIVEPYNCVLSTHSLLEHTDVSFMVDNEALY

Parental  DICRRSLDIERPTYTNLNRLVSQVISSLTASLRFDGALNVDVNEFQTNLVPYPRIHFMLSSYAPVISAEK
          DICRR.LDIERPTYTNLNRL..Q..SS.TASLRFDGALNVDV.EFQTNLVPYPRIHF...SYAPVISAEK
Retrocopy DICRRNLDIERPTYTNLNRLIGQIVSSITASLRFDGALNVDVTEFQTNLVPYPRIHFVVPSYAPVISAEK

Parental  AYHEQLSVAEITNSAFEPSSMMAKCDPRHGKYMACCLMYRGDVVPKDVNAAVATIKTKRTIQFVDWCPTG
          AYHEQLSVAEITNSAFEP.SM..K.DPRHGKYMA.CLMYRGDVVPKDVNAAVATIKTKRTIQFVDWCPTG
Retrocopy AYHEQLSVAEITNSAFEPASMLCKVDPRHGKYMAVCLMYRGDVVPKDVNAAVATIKTKRTIQFVDWCPTG

Parental  FKCGINYQPPGVVPGGDLAKVQRAVCMISNSTSVVEVFSRIDHKFD
          FKCGINYQPP.VVPGGDLAKV.RAV.M.SNST...E..SRIDHKFD
Retrocopy FKCGINYQPPTVVPGGDLAKVMRAVTMMSNSTCIAELYSRIDHKFD

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_4 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_1AL_0C964B45F	1 retrocopy	retro_taes_4 ,