RetrogeneDB ID: retro_hvul_17

Retrocopy location

• Organism: Barley (Hordeum vulgare)
• Coordinates: 4:495878860..495879592(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: MLOC_70438
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MLOC_1956
• Aliases: None
• Description: None

Sequence

>retro_hvul_17
ATGGCGGTGGTGATGAAGCAGCGTGGCTACCTGGACGACGCCGTGGACGCCATCCGGTCGCTGCGCCACCTCTGCCCGGG
GAAGCAGTCGCAGGAGTCCCTGGACAACATCCTGCTCGACCTCTACAAGGCCAGCGGGCGCACCAAGGAGGAGATCGAGC
TGCTCAAGCACAAGCTCCGGCGGATCTACCACGGCCAGGCCTTCCCCGCCGGCAAGTCCACCAAGCGCGCCCGCTCCCAC
GGCCGCAAGATCCACGTCTCCGTCCAGCAGGAGACGTCCCGGGTGCTGGGCAACCTCGCCTGGGCCTACATGCAGCAGCG
CAACTTCATGGCGGCCGAGGCCGTCTACCGCAAGGCGCAGATGGTGGAGCCCGACGCCAACAAGGCGTGCAACCTCGCGG
TGTGCCTCGTGGAGCAGGGGCGGCTGGGGGACGCCGAGGGGGTGCTCGCCTACGTGGTCGCCGGCGCGTTCCGCGACGGG
AGGGAGAGGGAGCACGGCGGCGGGAAGGTCGTCAGGAAGGCGGAGGAGCTGCTGGAGCGGATCAGGGCGGAGATGGGTGG
AGGCGGCGGTGAGAAGGAGGCCGGAGAGGAGGACGGCGCCGAGGCCGACGAGATGTCGGAGCTGCTGGACGCGGTGGCCA
GGCAGTGGGCGCCGCCGTACAGGAAGAGTCACCGGAGGCTGCCCGTGTTCGAGGAGATCACACCCTTCGGCAGGGAGCAG
ATGGCTTGCTAG

Alignment

ORF - retro_hvul_17 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.44 %
• Parental protein coverage: 50.67 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAVVMKQQDRAEEAIEAIRSFRHLC-SRQAQESLDNLLIDLYKKCGKVDEQIELLKQKLKMICLGEAFN-
          MAVVMKQ......A..AIRS.RHLC...Q.QESLDN.L.DLYK..G...E.IELLK.KL..I..G.AF..
Retrocopy MAVVMKQRGYLDDAVDAIRSLRHLCPGKQSQESLDNILLDLYKASGRTKEEIELLKHKLRRIYHGQAFPA

Parental  GKITKTARSHGKKFQVSIQQEMSRILGNLGWAYMQQNNYEAAELVYRKAQTIVPDANRACNLGLCLIKLG
          GK.TK.ARSHG.K..VS.QQE.SR.LGNL.WAYMQQ.N..AAE.VYRKAQ...PDAN.ACNL..CL...G
Retrocopy GKSTKRARSHGRKIHVSVQQETSRVLGNLAWAYMQQRNFMAAEAVYRKAQMVEPDANKACNLAVCLVEQG

Parental  RDEEAVQVLEDVL
          R...A..VL..V.
Retrocopy RLGDAEGVLAYVV

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_17 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.

---

Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Hordeum vulgare	MLOC_1956	1 retrocopy	retro_hvul_17 ,