RetrogeneDB ID: retro_omer_10

Retrocopy location

• Organism: Oryza meridionalis
• Coordinates: 12:3663353..3664760(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: OMERI12G03790
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: OMERI01G36380
• Aliases: None
• Description: None

Sequence

>retro_omer_10
ATGGTTCAGATCGAGCCGCTCGAGGTGTCACTGGAGGCCGGCAACCAGGCGGACTCGGCGTTGCTCGACGACGACGGGCG
GCCGCGCCGCACCGGCACGTTCTGGACGGCGAGCGCGCACATCATCACCGCCGTGATCGGGTCCGGGGTGCTGTCGCTGC
CGTGGGCGACGGCGCAGCTCGGGTGGATCGCCGGGCCCGCCGTGATGGTGGTGTTCGGCGGCGTCACCTACTTCACCGCC
ACGCTCCAGGCCGAGTGCTACCGCACCGGCGACGAGGAGACCGGCGCCCGCAACTACACCTACATCGGCGCCGTCCGCGC
CATCCTCGGCGGCGCCAACGCCAAGCTCTGCGGCATCATCCAGTACGCCAACCTCGTCGGCACCGCCATCGGCTACACCA
TCGCCGCCTCCATCAGCATGCAGGCCATCAAGAGGGCGGGCTGCTTCCACGCCAATGGCCACAACGTCCCGTGCCACATC
TCGAGCACCCCGTACATGCTCATCTTCGGCGCCTTCGAGATCGTCTTCTCGCAGATCCCCGACTTCCACGAGATCTGGTG
GCTGTCCATCGTCGCCGCCGTCATGTCCTTCACCTACTCCGGCGTCGGCCTCGGCCTCGGCATCGCCCAGACCGTCGCCG
ACGGCGGGTTCCGCGGCACGATCGCCGGCGTCACCAACGTCACCGCCACGCAGAAGGCGTGGCGGTCGTTGCAGGCGCTG
GGCAACATCGCCTTCGCGTTCGCCTTCTCCAACGTGTACACCGAGATCCAGGACACGATCAAGGCGCCGCCGCCGTCGGA
GGCGAAGGTGATGAAGCAGGCGTCGCTGCTGAGCATCGTGGCGACGTCAGTGTTCTACGCGCTGTGCGGGTGGATGGGCT
ACGCGGCGTTCGGCAACGCGGCGCCGGACAACCTCCTCACCGGATTCGGCTTCTTCGAGCCGTTCTGGCTCGTCGACGCC
GCCAACGTCGCCATCGCCGTGCACCTCATCGGCGCCTACCAGGTGTACTGCCAGCCGGTCTTCGCCTTCGTCGAGCGCAA
GGCGTCGCGCCGGTGGCCCGACAGCGGCTTCGTCAACAGCGAGCTCCGGGTGGGGCCCTTCGCCATCAGCGCGTTCCGGC
TGGCGTGGCGCTCGGTGTTCGTCTGCTTCACCACCGTGGTCGCCATGGCGCTGCCCTTCTTCGGCGTCATCGTCGGCCTC
CTCGGCGCCATCTCCTTCTGGCCGCTCACCGTCTACCTCCCCACGGAGATGTACATCGCGCAGCGCGGCGTGCGGCGCGG
CAGCGCAGTGTGGATCGGGCTCAGGGCGCTCGCCGTCGCCGGCTTCGTCGTGTCGGCCGCCGCCACCACGGGCGCCGTCG
CCAACTTCGTCGGCGACTTCATGAAATTCCGTCCCTTCAGTGGATAG

Alignment

ORF - retro_omer_10 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.3 %
• Parental protein coverage: 94.26 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AGSKIFDDDGRPRRNGTMWTASAHIITAVIGSGVLSLGWAIAQLGWVAGPAVMVLFSLVTYYTSSLLSDC
          A.S...DDDGRPRR.GT.WTASAHIITAVIGSGVLSL.WA.AQLGW.AGPAVMV.F..VTY.T..L...C
Retrocopy ADSALLDDDGRPRRTGTFWTASAHIITAVIGSGVLSLPWATAQLGWIAGPAVMVVFGGVTYFTATLQAEC

Parental  YRSGDPVTGKRNYTYMDAVNANLSGFKVKICGFLQYANIVGVAIGYTIAASISMLAIGRANCFHRKGHGD
          YR.GD..TG.RNYTY..AV.A.L.G...K.CG..QYAN.VG.AIGYTIAASISM.AI.RA.CFH..GH..
Retrocopy YRTGDEETGARNYTYIGAVRAILGGANAKLCGIIQYANLVGTAIGYTIAASISMQAIKRAGCFHANGHNV

Parental  PCNVSSVPYMIIFGVAEVFFSQIPDFDQISWLSMLAAVMSFTYSVIGLSLGIVQVVANGGLKGSLTGISI
          PC..SS.PYM.IFG..E..FSQIPDF..I.WLS..AAVMSFTYS..GL.LGI.Q.VA.GG..G...G...
Retrocopy PCHISSTPYMLIFGAFEIVFSQIPDFHEIWWLSIVAAVMSFTYSGVGLGLGIAQTVADGGFRGTIAGVT-

Parental  GVVTPMDKVWRSLQAFGDIAFAYSYSLILIEIQDTIRAPPPSESAVMKRATVVSVAVTTVFYMLCGSMGY
          ..VT...K.WRSLQA.G.IAFA...S....EIQDTI.APPPSE..VMK.A...S...T.VFY.LCG.MGY
Retrocopy -NVTATQKAWRSLQALGNIAFAFAFSNVYTEIQDTIKAPPPSEAKVMKQASLLSIVATSVFYALCGWMGY

Parental  AAFGDDAPGNLLTGFGFYEPFWLLDIANAAIVVHLVGAYQVFCQPLFAFVEKWAAQRWPESPYITGEVEL
          AAFG..AP.NLLTGFGF.EPFWL.D.AN.AI.VHL.GAYQV.CQP.FAFVE..A..RWP.S.......EL
Retrocopy AAFGNAAPDNLLTGFGFFEPFWLVDAANVAIAVHLIGAYQVYCQPVFAFVERKASRRWPDSGFVNS--EL

Parental  RLSPSSRRCKVNLFRSTWRTAFVVATTVVSMLLPFFNDVVGFLGALGFWPLTVYFPVEMYVVQKKVPRWS
          R..P.........FR..WR..FV..TTVV.M.LPFF...VG.LGA..FWPLTVY.P.EMY..Q..V.R.S
Retrocopy RVGPFA----ISAFRLAWRSVFVCFTTVVAMALPFFGVIVGLLGAISFWPLTVYLPTEMYIAQRGVRRGS

Parental  TRWVCLQMLSVGCLVISIAAAAGSIAGVMSDLKVYRPFKG
          ..W..L..L.V...V.S.AA..G..A....D....RPF.G
Retrocopy AVWIGLRALAVAGFVVSAAATTGAVANFVGDFMKFRPFSG

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_10 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	OMERI01G36380	1 retrocopy	retro_omer_10 ,