RetrogeneDB ID: retro_obra_7

Retrocopy location

• Organism: Oryza brachyantha
• Coordinates: 7:13626229..13626685(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: OB07G25350
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: OB02G23100
• Aliases: None
• Description: None

Sequence

>retro_obra_7
ATGGGCCGGATGTACAGCAGCGGGAAGGGCATGTCCTGCTCGGTGCTGCCCTACAGGCGGGCCGCCCCGAGCTGGGTCAA
GACGTCCGCGTCGGAGGTGGAGGAGATGATCGTGCGGGCCGCCAAGAAGGGCCAGCTCCCCTCGCAGATCGGCGCGGTGC
TCCGCGACGCCCACGCCGTCCCCCTCGCCCGGGGCGTCACCGGCGGCAAGATCCTCCGCGTGCTCAAGTCCCGCGGCCTG
GCCCCGGAGGTGCCCGAGGACCTCTACTCCCTCATCAAGAAGGCCGTGGCGATGAGGAGGCACCTGGAGAGGAACAGGAA
GGACAGGGACACCAAGTTCCGCCTCATCCTCGTAGAGAGCAGGGTGCACCGCCTCGCCCGCTACTACCGCCTCAACAAGA
AGATCCCCGCCTCCTGGAAGTACGACTCCACCACCGCGAGCACCCTCGTGGCCTGA

Alignment

ORF - retro_obra_7 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.17 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGRMHSRGKGISSSALPYKRTPPSWLKTAASDVEEMIMKAAKKGQMPSQIGVVLRDQHGIPLVKSVTGSK
          MGRM.S.GKG.S.S.LPY.R..PSW.KT.AS.VEEMI..AAKKGQ.PSQIG.VLRD.H..PL...VTG.K
Retrocopy MGRMYSSGKGMSCSVLPYRRAAPSWVKTSASEVEEMIVRAAKKGQLPSQIGAVLRDAHAVPLARGVTGGK

Parental  ILRILKAHGLAPEIPEDLYFLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKRTKKLPPTWK
          ILR.LK..GLAPE.PEDLY.LIKKAVA.R.HLERNRKD.D.KFRLILVESR.HRLARYY...KK.P..WK
Retrocopy ILRVLKSRGLAPEVPEDLYSLIKKAVAMRRHLERNRKDRDTKFRLILVESRVHRLARYYRLNKKIPASWK

Parental  YESTTASTLVA
          Y.STTASTLVA
Retrocopy YDSTTASTLVA

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Oryza brachyantha was not studied using RNA-Seq expression data.

ChIP-Seq

Oryza brachyantha was not studied using ChIP-Seq data.

EST

Oryza brachyantha was not studied using EST data.

TSS

Oryza brachyantha was not studied using FANTOM5 data.

Lab

retro_obra_7 was not experimentally validated.

Homology

Retrocopy orthology:

Oryza brachyantha 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Oryza brachyantha	OB02G23100	1 retrocopy	retro_obra_7 ,
Oryza punctata	OPUNC08G01190	1 retrocopy	retro_opun_35,
Oryza glaberrima	ORGLA08G0005800	1 retrocopy	retro_ogla_42,
Sorghum bicolor	Sb07g001620	1 retrocopy	retro_sbic_47,