RetrogeneDB ID: retro_hvul_81

Retrocopy location

• Organism: Barley (Hordeum vulgare)
• Coordinates: 5:492601998..492602316(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MLOC_73033
• Aliases: None
• Description: None

Sequence

>retro_hvul_81
GCGGCGGCGCTGGTGAAGGTGAGCATGGACGGCGCGCCCTACCTGCGCAAGGTGGACATGGGCACCTACAAGAGCTACCA
GGAGCTGTCCAAGGCCCTGGAGAAGATGTTCAGCTCCTTCACCATCGGCAACGACTGCTCTCAGGCTCGGGGCATCAATG
GCATGAACGAGACCAAGCTGGCCGACCTGCTCACCGGCTCCGACTACGTGCCCACCTACGAGGACAAGGACGGCGACTGG
ATGCTCGTCGGCGACGTCCCCTGGGAGTACGTAATTAATCAAATTAAGTGCATGCATGTGTTTTATTCTTCTCATGCT

Alignment

ORF - retro_hvul_81 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.7 %
• Parental protein coverage: 69.8 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AAAFVKVSMDGAPYLRKVDLSMYKTYQDLSKALEKMFSSFTIGNCGTQ--GMNGMNESKLMDLLNGSEYV
          AAA.VKVSMDGAPYLRKVD...YK.YQ.LSKALEKMFSSFTIGN...Q..G.NGMNE.KL.DLL.GS.YV
Retrocopy AAALVKVSMDGAPYLRKVDMGTYKSYQELSKALEKMFSSFTIGNDCSQARGINGMNETKLADLLTGSDYV

Parental  PTYEDKDGDWMLVGDVPWEMFVESCKRLRIMKGSEA
          PTYEDKDGDWMLVGDVPWE......K.......S.A
Retrocopy PTYEDKDGDWMLVGDVPWEYVINQIKCMHVFYSSHA

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Hordeum vulgare was not studied using RNA-Seq expression data.

ChIP-Seq

Hordeum vulgare was not studied using ChIP-Seq data.

EST

Hordeum vulgare was not studied using EST data.

TSS

Hordeum vulgare was not studied using FANTOM5 data.

Lab

retro_hvul_81 was not experimentally validated.

Homology

Retrocopy orthology:

Hordeum vulgare 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
Hordeum vulgare	MLOC_73033	1 retrocopy	retro_hvul_81 ,