RetrogeneDB ID: retro_taes_161

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 7B:250504643..250505279(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_4AS_34072BFC9
• Aliases: None
• Description: None

Sequence

>retro_taes_161
CACGTTCCTTGTGGCATCGCCCCTTCCCGCTTAGCCTTCATCGGCTATGGTCCGTTTGCCTTTAGCTCCTTTCTCCTCAT
CACACGCTACCTACCTTACACCATGTTTGAAATAGATGACCTTTTTGACGTGCCCGACGACCGTGTCGATAAGTTGTTCT
GCATGGACTCGGATGTGGACATGTGCATGTCCTTCCACATGGCCGACATAGCAACCTTGCCCGCGAGCTCGCCGCGTATG
ATGTTGTACTCTTGGACACACTCGTCGACATGGACATCGAGGACATGGTGAAGGTGGTAATGCTCCTCGGGGCGCACATG
GAAGACAGGGTAACCCTTGTCGTGCATGGTGCTCATGGAGCACGCATGGTTCCTATACCCGATTTTGGACACCGTGGACA
TTGGCCGAGGCGAGTTTGAGGTACTGACCGTGCGCCATCCCAACGACGATGTCGTGAACTCTATCATTATCACATAGAAA
TCCAAGGACATGCAAGCCAATGGACTTTGCAGCAAGTGTGGTAGGATGGACAGTACAAGCGTGGCACGATGTCAGTGGTC
AGCCCTCCGTGCAGGTTCGGTGAGATGGTAGCTGACATGACCCAGAAGAGTGAGGAGTTTGCCAACGTTGAAGTGG

Alignment

ORF - retro_taes_161 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.94 %
• Parental protein coverage: 78.81 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  YVPGGIAPARVAFIGSGPLPFSSYVLAARHLPDTMFDNYDLCGAANDRASKLFRADKDVGARMSFHTADV
          .VP.GIAP.R.AFIG.GP..FSS..L..R.LP.TMF...DL.....DR..KLF..D.DV...MSFH.AD.
Retrocopy HVPCGIAPSRLAFIGYGPFAFSSFLLITRYLPYTMFEIDDLFDVPDDRVDKLFCMDSDVDMCMSFHMADI

Parental  A-DLAGELAAYDVVFLAALVGMAAEDKAKVIAHLGAHMADGAALVVRSAHAAR-GFLYPIVDPQDIGRGG
          A..LA.ELAAYDVV.L..LV.M..ED..KV...LGAHM.D...LVV..AH.AR..FLYPI.D..DIGRG.
Retrocopy A<NLARELAAYDVVLLDTLVDMDIEDMVKVVMLLGAHMEDRVTLVVHGAHGAR>WFLYPILDTVDIGRGE

Parental  FEVLAVCHPDDDVVNSVIIAQKSKDMHANEHRNGRGGQYAEFQQVCRWSARRAGSARWWRMRPRRERSSP
          FEVL.V.HP.DDVVNS.II..KSKDM.AN......G.........C.WSA.RAGS.RW....PRR.RS.P
Retrocopy FEVLTVRHPNDDVVNSIIIT*KSKDMQANGLCSKCGRMDSTSVARCQWSALRAGSVRW*LT*PRRVRSLP

Parental  TPKW
          T.KW
Retrocopy TLKW

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_161 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_4AS_34072BFC9	1 retrocopy	retro_taes_161 ,