RetrogeneDB ID: retro_omer_7

Retrocopy location

• Organism: Oryza meridionalis
• Coordinates: 3:38235195..38235927(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: OMERI03G38330
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: OMERI01G19440
• Aliases: None
• Description: None

Sequence

>retro_omer_7
ATGGAGAATAGCAGGGAGCTGCAGCCGGAGTCGTCGCCGGCGAACAACAATAGCAAGAAGAAGGAGGAGAAGAAGAAGAC
GGCGTCGCGGTTCCGGCGTGTGTGCGTGTTCTGCGGCAGCAGCCCCGGGAAGAAGGCGTCGTACCAGGTGGCCGCCGTGC
AGCTGGGGCAGCAGCTGGTGGAGCGCGGCATCGACCTGGTGTACGGCGGCGGCAGCGTTGGGCTGATGGGGCTGGTGTCC
CGCGCCGTCCACGGAGGCGGCGGGCACGTGGTGGGCGTGGTGCCCAATGGCGAGCTGATCGGCGAGACGCTGGGGGAGGT
GAGGGCGGTGGGAAGCATGCACCAGCGGAAGGCGGAGATGGCGCGGGAGTCGGACGCCTTCGTCGCCCTCCCCGGCGGGT
ACGGCACGCTGGAGGAGCTCCTGGAGGTCATCACCTGGGCTCAGCTCCGCATCCACCACAAGCCCGTCGGCCTCCTCAAC
GTCGACGGCTACTACGACTCCCTGCTCGCTTTCATCGACAAGGCCGTCCACGAAGGCTTCGTCTCTCCGCCCGCCCGCCG
CATCATCGTCGCCGCGCCCACCGCCTCAGACCTGCTCTGCAAGCTCGAGGAATACGTGCCGCCGCCGCACGACGCCACCG
CCCTGAAGCTCACCTGGGGCTGGGATATGTCCACCGTATCGGAGCAGCACGCCGGAAGCATCTACTCCCCCAAGCCCGAC
ATGGCACGCTAG

Alignment

ORF - retro_omer_7 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.22 %
• Parental protein coverage: 75.93 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SRFRRICVYCGSAKGRKASYQDAAVELGKELVERGIDLVYGGGSIGLMGLVSHAVHDGGRHVIGVIPKSL
          SRFRR.CV.CGS..G.KASYQ.AAV.LG..LVERGIDLVYGGGS.GLMGLVS.AVH.GG.HV.GV.P...
Retrocopy SRFRRVCVFCGSSPGKKASYQVAAVQLGQQLVERGIDLVYGGGSVGLMGLVSRAVHGGGGHVVGVVPNG-

Parental  MPREVTGEPVGEVRAVSGMHERKAEMARFADAFIALPGGYGTLEELLEVITWAQLGIHKKPVGLLNVDGF
          ...E..GE..GEVRAV..MH.RKAEMAR..DAF.ALPGGYGTLEELLEVITWAQL.IH.KPVGLLNVDG.
Retrocopy ---ELIGETLGEVRAVGSMHQRKAEMARESDAFVALPGGYGTLEELLEVITWAQLRIHHKPVGLLNVDGY

Parental  YDPFLSFIDMAVSEGFIAEDARRIIISAPTARELVLKLEEYVP
          YD..L.FID.AV.EGF....ARRII..APTA..L..KLEEYVP
Retrocopy YDSLLAFIDKAVHEGFVSPPARRIIVAAPTASDLLCKLEEYVP

Legend:

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

Expression

RNA-Seq

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

ChIP-Seq

Oryza meridionalis was not studied using ChIP-Seq data.

EST

Oryza meridionalis was not studied using EST data.

TSS

Oryza meridionalis was not studied using FANTOM5 data.

Lab

retro_omer_7 was not experimentally validated.

Homology

Retrocopy orthology:

Oryza meridionalis 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
Oryza meridionalis	OMERI01G19440	1 retrocopy	retro_omer_7 ,