RetrogeneDB ID: retro_hvul_48

Retrocopy location

• Organism: Barley (Hordeum vulgare)
• Coordinates: 2:558962424..558962712(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MLOC_74843
• Aliases: None
• Description: None

Sequence

>retro_hvul_48
ACAAGGTACGTGGAGGTGGACGAGGACAAAGGCACAGAGCTGTTCTACTACTTCGTGGAGTCTGAGTCCGGCGCGGAGGA
CGCTCCTTTCCTCCTCTGGCTCACCGGCGGCGACCGTTGCTCCGTGCTCAGCGGCCTCGCCTTGGAGATCGGTACGTCTA
GCTTGCTTGCATTCTCAAGCGTCGAATCTCATATCGCTGCTCTCCGACATCATTATCGTGTGTATTATTCCATACATGTG
GTGGACATGGCGGCAACTGCAGGGCCATTCCAGTTCGTCCCAGAGCCT

Alignment

ORF - retro_hvul_48 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.08 %
• Parental protein coverage: 56.07 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TRYVEVDEDNGTELFYYFIESEAGTEDAPFLLWLTGGDHCTVFSGLAFEIGPVKFVVEPYSGTTPRLEIN
          TRYVEVDED.GTELFYYF.ESE.G.EDAPFLLWLTGGD.C.V.SGLA.EIG.........S.........
Retrocopy TRYVEVDEDKGTELFYYFVESESGAEDAPFLLWLTGGDRCSVLSGLALEIGTSSLLA--FSSVESHIAAL

Parental  PHSWTKVANILFVDTPVGAG-FSFSRRP
          .H.......I..VD....AG.F.F...P
Retrocopy RHHYRVYYSIHVVDMAATAGPFQFVPEP

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_48 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_74843	1 retrocopy	retro_hvul_48 ,