RetrogeneDB ID: retro_taes_118

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 3A:165287193..165287962(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: TRAES3BF024100040CFD_g
• Aliases: None
• Description: None

Sequence

>retro_taes_118
GTGATATCCTGTCTACTTACATATTTGTCTCTGCAAGTGCCACTCACTAAAGAGTATTCGGCTCATCGGTACCATGTACT
TTTGGGATTTTTGGGATGATGAGGACGTAGTAATTAAGCTTGCAGCTAAATGTCCAATGCTACAAGAGATAGAGTGCTCT
CATCAGAAGCAGCCATGGCATTTTTTCACGAGGATCGGCGCAGCGCGCCCAGAGTTGAAACGTCTAAGAGTCCGTTATCC
TTGGTTCGACTCAGTATCAATATTGATGGATGAAGGCGAGGAGGAGGAGGAGTCTGATGAGGCCTGGGAGGCGAGACAGA
ATCAGGAGGCCTTTGCCATAGCAGAGAGCTTGCATGAGTTGCGGCTCCTTCAGATGGCAGGCTATGGCCTGACCAACAAA
GGGGTATACGCCATCCTCGAAGGCTGCCCCCACCTTGAGTTCCTCGACCTTAGAGAATGCCTCCACATCGAAGTTAACGC
TGAACTCCAAGCTCGCTGTGCCAATATCAGGCATGTCCAGCTGCCAGGAGTAGGGCCTTATGTTCCGTGCCCCGAACTCC
ATACTATCGAGGCGGATGAAGGTGAAGTGATCGAGATGGATGATCTCTATGAAACGGAGGCTCGCTCTCTGCGCAACGAG
CTAGCGACGGAAAATGATGACTACTACGGCGAGAACAACTGCTGGTATGACTACTCGCTCCCCTCGTCCCCTGGCTCGCC
TGTCGTACCGATGTACTCGATGGATGATCCCAGATACTACTGGGAGCTG

Alignment

ORF - retro_taes_118 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.45 %
• Parental protein coverage: 78.48 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VTSELLNYIA-SRCHSLKSIRLIGTMY---FWDDEDVVIKLAAKCPMLQEIECSDQKQPWPFFTRIGAAR
          V.S.LL.Y.....CHSLKSIRLIGTMY...FWDDEDVVIKLAAKCPMLQEIECS.QKQPW.FFTRIGAAR
Retrocopy VISCLLTYLS>CKCHSLKSIRLIGTMYFWDFWDDEDVVIKLAAKCPMLQEIECSHQKQPWHFFTRIGAAR

Parental  PELKRLRVRYPWFDSDSILMNDEGEKEEESDEAWEARQNQEAFAIAESLHELRLLQMSGYGLTNKGVYAI
          PELKRLRVRYPWFDS.SILM.DEGE.EEESDEAWEARQNQEAFAIAESLHELRLLQM.GYGLTNKGVYAI
Retrocopy PELKRLRVRYPWFDSVSILM-DEGEEEEESDEAWEARQNQEAFAIAESLHELRLLQMAGYGLTNKGVYAI

Parental  LEGCPHLEFLDLRECLHIEVNAELQARCANIRHVQLPGVGPYVPCPELHTIEADEGEVIEMDDLYETGAH
          LEGCPHLEFLDLRECLHIEVNAELQARCANIRHVQLPGVGPYVPCPELHTIEADEGEVIEMDDLYET.A.
Retrocopy LEGCPHLEFLDLRECLHIEVNAELQARCANIRHVQLPGVGPYVPCPELHTIEADEGEVIEMDDLYETEAR

Parental  SLRNELAMDNVVTDNDDYYGENYCWDDYSLPSSPGSPVVPMYSMADPRYYWEL
          SLRNELA..N.....D.Y...N.CW.DYSLPSSPGSPVVPMYSM.DPRYYWEL
Retrocopy SLRNELATEN----DDYYGENN-CWYDYSLPSSPGSPVVPMYSMDDPRYYWEL

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_118 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	TRAES3BF024100040CFD_g	1 retrocopy	retro_taes_118 ,