RetrogeneDB ID: retro_hvul_25

Retrocopy location

• Organism: Barley (Hordeum vulgare)
• Coordinates: 2:585653470..585653833(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: MLOC_11980
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MLOC_81233
• Aliases: None
• Description: None

Sequence

>retro_hvul_25
ATGCCCGCGGCCGGCTCCCCCGACCCTTTCGCCGACGACGACGCGCTCCCGCCCTCCTCCTCGTTCGACCCGTTCGCCGA
CGACGCGGCGGCCGGGGCCGACGACGCCTACGTGCACCTCCGCGTGCAGCAGCGCAATGGCAGGAAGACGCTGACCACGG
TGCAGGGGCTCAGCGCCGGCTACAACTACGCCAAGGTGCTGCGGGACCTCAAGCGGGAGCTCTGCTGCAACGGCACCCTC
GTCGAGGACAAGGAGCTCGGCAACGTCATCCAGCTGCAGGGCGACCACCGCAAGCGCGTCGCCGGCTTCCTCGCCAAGGC
CGGCCTCGCCAAGACGGACTGCATCAAGGTCCACGGCTTCTAA

Alignment

ORF - retro_hvul_25 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.09 %
• Parental protein coverage: 92.17 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TAFDPFAEANAEDSGAGAGSKNYVHVRVQQRNGRKSLTTVQGLKKDYSYNKILKDLKKEFCCNGTVVQDP
          ..FDPF....A.D..AGA....YVH.RVQQRNGRK.LTTVQGL...Y.Y.K.L.DLK.E.CCNGT.V.D.
Retrocopy SSFDPF----ADDAAAGADDA-YVHLRVQQRNGRKTLTTVQGLSAGYNYAKVLRDLKRELCCNGTLVEDK

Parental  ELGQVIQLQGDQRKNVATFLVQAGLAKKESIKIHGF
          ELG.VIQLQGD.RK.VA.FL..AGLAK...IK.HGF
Retrocopy ELGNVIQLQGDHRKRVAGFLAKAGLAKTDCIKVHGF

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_25 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_81233	1 retrocopy	retro_hvul_25 ,