RetrogeneDB ID: retro_taes_88

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_274688:1..637(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_3F9731C83
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2BS_C7E82EE7A
• Aliases: None
• Description: None

Sequence

>retro_taes_88
ATGTCTAGTGTCACCGATGTGCCACCTGTATCGGAGACGAAGTCGAATTTCCTCAAAGCTTACAAGCGGCCCATCCCAAG
CATCTACAACACCGTGTTACAGGAGCTCATCGTACAGCAGCATTTGATGAGGTACAAAAGGACTTACCGATACGACCCCG
TTTTCGCACTCGGCTTTGTAACCGTCTATGATCAGCTCATGGATGGATATCCGAGCGATCAGGATCGTGATTCCATTTTC
CAAGCTTACGTTGAAGCTTTGAATGAGGATCCTAAGCAATACCGAATTGATGCGCAGAAGATGGAGGAATGGGCGAGAAG
CCAGACGTCTGCTTCACTAGTTGACTTCTCCTCTAAGGAAGGAGAAGTTGAAGCGATTCTTAAGGACATTTCAGAAAGAG
CTGGCAGTAAGGAGGGTTTCAGTTACAGCAGGTTCTTCGCTGTTGGCCTCTTTCGCTTGCTTGAGCTTGCAGGTGCTACT
GATCCAACTGTCCTTGACAAGCTTTGTGCGTCCCTAAATATCAACAAGAAAAGCGTGGATCGGGACCTCGATGTGTATCG
CAACCTGCTGTCAAAGCTTGTCCAAGCCAAGGAACTACTCAAGGAGTATGTCGAGAGGGAGAAGAAGAAGAGAGGG

Alignment

ORF - retro_taes_88 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.72 %
• Parental protein coverage: 74.13 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VATAGDIPPTVADTKMNFLKSYKRPIPSIYSTVLQELLVQQHLMRYKSTYQYDPVFALGFVTVYDQLMEG
          .....D.PP.V..TK.NFLK.YKRPIPSIY.TVLQEL.VQQHLMRYK.TY.YDPVFALGFVTVYDQLM.G
Retrocopy MSSVTDVPP-VSETKSNFLKAYKRPIPSIYNTVLQELIVQQHLMRYKRTYRYDPVFALGFVTVYDQLMDG

Parental  YPSTEDRDAIFKSYVTALNEDPEQYRADAQRMEEWARSQNGNLLVEFSSRDGEIESILKDISERAQGKGN
          YPS..DRD.IF..YV.ALNEDP.QYR.DAQ.MEEWARSQ....LV.FSS..GE.E.ILKDISERA..K..
Retrocopy YPSDQDRDSIFQAYVEALNEDPKQYRIDAQKMEEWARSQTSASLVDFSSKEGEVEAILKDISERAGSKEG

Parental  FSYSRFFAVGLFRLLELSNATEPTVLDKLCAALNINKKSVDRDLDVYRNLLSKLVQAKELLKEYIEREKK
          FSYSRFFAVGLFRLLEL..AT.PTVLDKLCA.LNINKKSVDRDLDVYRNLLSKLVQAKELLKEY.EREKK
Retrocopy FSYSRFFAVGLFRLLELAGATDPTVLDKLCASLNINKKSVDRDLDVYRNLLSKLVQAKELLKEYVEREKK

Parental  KR
          KR
Retrocopy KR

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_88 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_2BS_C7E82EE7A	1 retrocopy	retro_taes_88 ,