RetrogeneDB ID: retro_hvul_33

Retrocopy location

• Organism: Barley (Hordeum vulgare)
• Coordinates: 7:442864538..442865909(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: MLOC_12712
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MLOC_59997
• Aliases: None
• Description: None

Sequence

>retro_hvul_33
ATGAGGATGTCCTTTCCTTTTGAGCTTGGTGATGATGACCACTCCTTGCAGGAATGTCACCTTACTGAAGGGGATACGGG
GACTTCTGTCTGGCACGTTGCAGAGGCTATCCATAGGTTAGAGCTTGCCTTTGGGGCCATCCCCAATGTAAGAGCTAAGG
GTGTGGCATCAACCAGAGCTGCCCAGCTGCTCAACCATATGCATCTCCAAGACCCTGTCGACATGGATGATATGGGGGTT
CCGGAGATAGAGACCGTTATTCTGCTGGACCGAGAGGTGGATATGGTGACACCAATGTGCTCTCAGCTGACGTACGAAGG
CCTATTAGACGAGATGTTGGAAATTCATAACGGATCCGTGGAAGTTGACGCCTGCGTTATGGACTCCCAACAAGATGGAA
AAAAGGTCAAGGTTCCACTCAATTCGAGCGATAAGTTGTACAGGGAGATTCGAGACCTCAACTTCCATGTTGTGCTTAAG
GTCGTCCACCAAAAGGCAATGGCTATTCAGCAAGATTACGCGCAAGTGAAATCCACAAACACACATTCGGTCTCTGAGAT
CAAGGATTTCGTGAAGAGGTTATACTCGCTACCTGAGATAACCAGGCATGTTAATTTGACGCATCATTTGCAATCGGTTG
TGAGAAAACTCTCATTCCATGCCCGAGTGGAGATTGAACAAAAGATACTGGAGGCGCAGGACTATGAAACGTGTTACAAG
TACATTGAGGAGATCATACAGAAGCAAGAGCCTATTGAAACCGTGCTTCGCCTTCTAGTGTTATTTTCCCTTACAAATGC
CGGATTGCCGAGGAAGAGTTTCGACTACCTGAGACAGGAGATACTGCACAGCTATGGCTTCGAGCACATGCCCTTGTTGT
ACAATCTGGAGAAAGCTGGCCTTGTTAAAAGGCGGGAATCGAGGAGTAATTGGGCTGTTATCAGGAGAGCTCTCAAGCTT
ATAGTTGATATAAAGGATCCTAATGATCCCCCTGATGATATATTATACGTCTTTGCTGGATACGCGCCTCTTAGTGTTCG
CCTTGTTGAGCACGCAGTGAGGTCTGGATGGCGATCTATTGAAGAAGTGTTGAAATTATTGCCAGGTCCTCATCTTGATT
TGAAAAGAGGTGTTTCGGCCATTAGTGGTTCAGCAGAATTGCTACCACACAGGGCACAGCAGAATGCCGACGGGGTTGGT
CGTCGTTCCGTTGTTCTGGTTGTGTTTGTTGGTGGCGTAACATTTGCTGAGATTGCCACGCTTCGATTTCTTGGTGCACA
GGAAGGAATGGGCTGTGACTTCGTGGTTGCAACAACAAAAGTCATCACTGGCAACACATTACTGAGACCAATCATAGCCA
GCAGCAAAGAG

Alignment

ORF - retro_hvul_33 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.1 %
• Parental protein coverage: 99.24 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MQLEDPVSMDNMGIPEIDTVILLDREVDMVTPMCSQLTYEGLLDEMLEIHNGSVEVDASIMGAQQDGKKV
          M.L.DPV.MD.MG.PEI.TVILLDREVDMVTPMCSQLTYEGLLDEMLEIHNGSVEVDA..M..QQDGKKV
Retrocopy MHLQDPVDMDDMGVPEIETVILLDREVDMVTPMCSQLTYEGLLDEMLEIHNGSVEVDACVMDSQQDGKKV

Parental  KVPLNSSDKLYKEIRDLNLHVVVQVVRQKATSIQQDYAEVKSTNTQSVSELKDFVKRLHSLPEIARHVNL
          KVPLNSSDKLY.EIRDLN.HVV..VV.QKA..IQQDYA.VKSTNT.SVSE.KDFVKRL.SLPEI.RHVNL
Retrocopy KVPLNSSDKLYREIRDLNFHVVLKVVHQKAMAIQQDYAQVKSTNTHSVSEIKDFVKRLYSLPEITRHVNL

Parental  AQHLQSFAAKPAFHARVEIEQIILEAQTYETCYEYIEEIIQKQEPIETVLRLLVLFSLTNAGLPKKNFDY
          ..HLQS...K..FHARVEIEQ.ILEAQ.YETCY.YIEEIIQKQEPIETVLRLLVLFSLTNAGLP.K.FDY
Retrocopy THHLQSVVRKLSFHARVEIEQKILEAQDYETCYKYIEEIIQKQEPIETVLRLLVLFSLTNAGLPRKSFDY

Parental  LRREILHSYGFEHMPLLYNLEKAGLVKRQESRTNWPVISRALQLIVDIKDPEN-PDDIAYIFAGYAPLSI
          LR.EILHSYGFEHMPLLYNLEKAGLVKR.ESR.NW.VI.RAL.LIVDIKDP...PDDI.Y.FAGYAPLS.
Retrocopy LRQEILHSYGFEHMPLLYNLEKAGLVKRRESRSNWAVIRRALKLIVDIKDPNDPPDDILYVFAGYAPLSV

Parental  RLVQHAVRSGWRSIEELLKLLPGPHLDFKRGISTISSSELLPGSGSQQSTDRVGHRSLVLVVFIGGVTSA
          RLV.HAVRSGWRSIEE.LKLLPGPHLD.KRG.S.IS.S..L.....QQ..D.VG.RS.VLVVF.GGVT.A
Retrocopy RLVEHAVRSGWRSIEEVLKLLPGPHLDLKRGVSAISGSAELLPHRAQQNADGVGRRSVVLVVFVGGVTFA

Parental  EIAALRFLSAQEGMGYDFLVATTKVITGNTLLRPIIASSKE
          EIA.LRFL.AQEGMG.DF.VATTKVITGNTLLRPIIASSKE
Retrocopy EIATLRFLGAQEGMGCDFVVATTKVITGNTLLRPIIASSKE

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_33 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_59997	1 retrocopy	retro_hvul_33 ,