RetrogeneDB ID: retro_hvul_28

Retrocopy location

• Organism: Barley (Hordeum vulgare)
• Coordinates: 7:28206427..28206850(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: MLOC_67352
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MLOC_59629
• Aliases: None
• Description: None

Sequence

>retro_hvul_28
ATGATGCAGGTCACCGTCGCCTTCAACCACTTCGGCAAGGGCCTCGTGCAGCGCATGCCGCGCTGCCGCTTCGGCTTCTT
CCACGTCGTGAACAACGACTACACGCACTGGAAGATGTACGCCATCGGCGGCAACCGCGACCCCACCATCATCAGCCAGG
GAAACCGGTTCATCGCGCCCGATGACCCCAATGCCAAGGAGGTGACCAAGCGGGAGTACACGCCCTACAACGAGTACAAG
GACTGGGTGTGGAAGTCGCAGGGGGACGTCATGATGAACGGGGCCTTCTTCAACCAGTCCGGCGGCCAGAACGAGCGCAC
GTACGGCAACATGGACTTCATCCCTGCCAAGCACGGCAAGTATGTCGGGCAGCTCACGCAGTTCGCCGGCACGCTCGACT
GCCGCGTCGGCAAGCCCTGCTAG

Alignment

ORF - retro_hvul_28 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.55 %
• Parental protein coverage: 85.28 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MQVTIAFNHFGEGLIQRMPRCRHGYFHVVNNDYTHWEMYAIGGSAEPTINSQGNRYLAPTNPFAKEVTKR
          MQVT.AFNHFG.GL.QRMPRCR.G.FHVVNNDYTHW.MYAIGG...PTI.SQGNR..AP..P.AKEVTKR
Retrocopy MQVTVAFNHFGKGLVQRMPRCRFGFFHVVNNDYTHWKMYAIGGNRDPTIISQGNRFIAPDDPNAKEVTKR

Parental  VETAQTTWKAWNWRSEGDMLLNGAFFTPSGAGASASYSRASSLGAKSSSMVATITSGAGALSCHKGSSC
          ..T.....K.W.W.S.GD...NGAFF..SG......Y.......AK....V...T..AG.L.C..G..C
Retrocopy EYTPYNEYKDWVWKSQGDVMMNGAFFNQSGGQNERTYGNMDFIPAKHGKYVGQLTQFAGTLDCRVGKPC

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_28 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_59629	1 retrocopy	retro_hvul_28 ,