RetrogeneDB ID: retro_taes_82

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_1435058:4..745(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_2696C13C2
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2BL_2768AE3B1
• Aliases: None
• Description: None

Sequence

>retro_taes_82
ATGAAGGCTTTTAAATCCAAAGGAGGTGATGTCTCGTGGCATATACATGATGAGAGATCTCTTCTCGCTCTTCAGGGTCC
TTTGGCTGCACCGGTGCTTCAACATTTGACTAAAGAAGACTTGAGCAAGCTTTACTTTGGACAGTTCCAGATTCTGGACA
TTAATGGTTCCACTTGCTTCCTTACCAGGACCGGGTATACAGGGGAAGATGGGTTTGAGATCTCGGTTCCATCCGAGCAT
GCAGTTGATTTAGCCAAAGCAATCTTGGAGAAATCCGAGGGAAAAGTAAGACTCACAGGTCTAGGAGCAAGAGACAGTCT
CAGGCTAGAAGCAGGTCTTTGTCTCTACGGCAACGACATGGAGCAACACATTTCTCCTGTCGAAGCTGGGCTCACATGGG
CCATAGGGAAACGTAGAAGAGCCGAAGGAGGGTTTCTTGGAGCTGATGTGATCCTCAAACAGCTTCAAGATGGACCAACG
ATCAGAAGAGTTGGATTCTTCTCTTCGGGGCCACCAGCGAGGTCGCATAGCGAGGTGCATGATGAGAGTGGTAACAAGAT
TGGGGAGATCACGAGTGGTGGGTTTAGTCCCAACTTGAAGAAGAACATAGCTATGGGGTATGTTAAGTCGGGTCAGCACA
AGAACGGGACCAAAGTGAAGATTTTGGTCCGTGGGAAACCTTATGAAGGTAACATCACTAAGATGCCGTTCGTGGCTACC
AAATACTACAAGCCGTCATGA

Alignment

ORF - retro_taes_82 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.33 %
• Parental protein coverage: 68.35 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEAFQKKGGDVKWHVHDERSLLALQGPLAAPTLQVLTKEDLSKMYFSDFKMIDINGSACFLTRTGYTGED
          M.AF..KGGDV.WH.HDERSLLALQGPLAAP.LQ.LTKEDLSK.YF..F...DINGS.CFLTRTGYTGED
Retrocopy MKAFKSKGGDVSWHIHDERSLLALQGPLAAPVLQHLTKEDLSKLYFGQFQILDINGSTCFLTRTGYTGED

Parental  GFEISVPSENAVDLAKALLEKSEGKVRLTGLGARDSLRLEAGLCLYGNDMEQHITPVEAGLSWAIGKRRK
          GFEISVPSE.AVDLAKA.LEKSEGKVRLTGLGARDSLRLEAGLCLYGNDMEQHI.PVEAGL.WAIGKRR.
Retrocopy GFEISVPSEHAVDLAKAILEKSEGKVRLTGLGARDSLRLEAGLCLYGNDMEQHISPVEAGLTWAIGKRRR

Parental  AEGGFLGAEVILKQLKEGPKIRRVGIFSQGPPPRSHSEIVSGTGENIGEVTSGGFSPCLKKNIAMGYVKN
          AEGGFLGA.VILKQL..GP.IRRVG.FS.GPP.RSHSE.....G..IGE.TSGGFSP.LKKNIAMGYVK.
Retrocopy AEGGFLGADVILKQLQDGPTIRRVGFFSSGPPARSHSEVHDESGNKIGEITSGGFSPNLKKNIAMGYVKS

Parental  GLHKAGTEFKVVVRGKQYDAVVTKMPFVPTKYYK
          G.HK.GT..K..VRGK.Y....TKMPFV.TKYYK
Retrocopy GQHKNGTKVKILVRGKPYEGNITKMPFVATKYYK

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_82 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_2BL_2768AE3B1	1 retrocopy	retro_taes_82 ,