RetrogeneDB ID: retro_taes_160

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 7B:229559895..229560352(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_5BL_8FFD203BD
• Aliases: None
• Description: None

Sequence

>retro_taes_160
ATGCAGATCTTTGTGAAGACTCTCACCGGGAAGACCATCACACTTGAGGTCGAGTCCTCTGACACAATTGACAATGTCAA
GGCAAAGATCCAGGACAAGGAGGGNNNNCCCGCCAGACCAGCAGCGTCTCATCTTTGCTGGCAAACAGCTCGAGGATGGC
CGGACGCTTGCTGATTACAATATCCAGAAGGAGTCCACACTCCATCTGGTGCTCAGGCTCAGGGGTGGCATGCAGATCTT
CGTGAAAACCCTCACTGGCAAGACCATCACTCTAGAGGTCGAGTCTTCGGATACAATCGACAATGTGAAGGCGAAGATCC
AGGACAAGGAGGGCATCCCTCCAGACCAGCAGAGGTTGATCTTTGCGGGCAAGCAGCTTGAGGATGGTCGCACTCTGGCG
GATTACAACATTCAGAAGGAGTCTACTCTCCATTTGGTGCTCCGCCTACGTGGTGGC

Alignment

ORF - retro_taes_160 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.08 %
• Parental protein coverage: 99.35 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGI-PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL
          MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKE...PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL
Retrocopy MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEXX>PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL

Parental  VLRLRGGTMIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYNIEG
          VLRLRGG..I.VKTLTGK.I....E..DTID..K.....KEGIPP.QQRLI.AGKQL.D..T..DYNI..
Retrocopy VLRLRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQK

Parental  GSVLHLVLALRGG
          .S.LHLVL.LRGG
Retrocopy ESTLHLVLRLRGG

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_160 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 2 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Musa acuminata	GSMUA_Achr3G30150_001	1 retrocopy	retro_macu_90,
Triticum aestivum	Traes_5BL_8FFD203BD	4 retrocopies	retro_taes_156, retro_taes_160 , retro_taes_166, retro_taes_45,