RetrogeneDB ID:

retro_olat_35

Retrocopy
location
Organism:Medaka (Oryzias latipes)
Coordinates:23:9574253..9575249(-)
Located in intron of:ENSORLG00000012195
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSORLG00000014457
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_olat_35
AAATGAAGGAGAGAATTGTCCCAGGACATTAGAAACAAAATTATAGGCAAACATTATAAAGGTAAAGGCTATAAAACCAT
CTCTAAGCAGCTTGAAGTTCCTGTGTCGACAGTGGCACATATTATTCAGAAGTTAAAGACCCACAAGACAGTAGACAACC
TCCCTGGACGTGGCAGGAAGAGGAAAATTGATGACAAATTGAGGAGACAGATAGTTGGAACTGTATCCAAAGAGCCCAGA
ACAACCTACAAAGACATTAAAGGTGAACTCCTAGATCAAGGTACATCAGTGTCAGATCGCACCATTCGTCGTTGTTTGAG
CCAGAGTGGATTTCATGGGAGATGACCAAGGAGGACACCACTGTTGAAAGGAAATCATAAAAAAGCCAGACTTGAATTTG
CAAAAATGCATGTTGACAATCCACAAAGCTTCTGGGAAAATGTCCTTTGGTCATATGAGACAAAACTGGAGCTTTTTGGT
AACGCACATCAGCTCTATGTTCGTAGACTCAAAAATGAAGCATACAATGAAAAGAATACTGTCCCTGCTGTGAAACATGG
AGGAGGCTCAGTTCTGTTTTGGGGCTGCATATGGCACAGGGTGTTGAAGTTGTGCAAGGTAAAATGAAATCTCAAGATTA
TTAAGGCATTCTGGATAGAAATGTGCTGCCTAGTGTCAGAAAGCTTAGTCTCAGTCGCAGGTCATGGGTCTTCCAACAGG
GCAACGATCCAAAACACACAGCCAGAAACCTCCAATAATGGCTCAGAGAAAAGCGTTGGACTATTCTGAAGTGGCCTTCT
ATGAGCCCAGATCTGAATCCCATTGAACATCTGTGGAAGGAGCTGAAGAAGACACCCGTCAAACCTAAGACAACTGGAAC
AGTTTGCTCATGAGGAGTTGGCCAAAATACCTGTCGACAGGTGCAGAAGGCTCATTGACAAATACAAAAACCATTTAATT
GCAGTGATTGCCTCAAAAGGTTGTGCAACAAAATAT

ORF - retro_olat_35 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.96 %
Parental protein coverage: 100. %
Number of stop codons detected: 4
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalKPRRELSQDIRNKIIDKHRKGKGYKTISKQLEVPVTTVAHTIQKFKTHRTVVNLPGRRERAELRTR-KKE
K.RRELSQDIRNKII.KH.KGKGYKTISKQLEVPV.TVAH.IQK.KTH.TV.NLPGR.............
RetrocopyK*RRELSQDIRNKIIGKHYKGKGYKTISKQLEVPVSTVAHIIQKLKTHKTVDNLPGRGRKRKIDDKLRRQ
ParentalLVMSVEKY---AFSEHQREYTHQGTSVSNHTIRGCLSQSGLHGRRPRRTPLLKGNHK-TRLEFAKMHVDK
.V..V.K...........E...QGTSVS..TIR.CLSQSG.HGR.PRRTPLLKGNHK..RLEFAKMHVD.
RetrocopyIVGTVSKEPRTTYKDIKGELLDQGTSVSDRTIRRCLSQSGFHGR*PRRTPLLKGNHKKARLEFAKMHVDN
ParentalPQSFWENVLWTDETKLELFGKAHQLYVRRLKNEAYNEKSTVPTVKHGGGSVLFWGCF-AASGTECLEVVQ
PQSFWENVLW..ETKLELFG.AHQLYVRRLKNEAYNEK.TVP.VKHGGGSVLFWGC...A.G.E...VVQ
RetrocopyPQSFWENVLWSYETKLELFGNAHQLYVRRLKNEAYNEKNTVPAVKHGGGSVLFWGCI<MAQGVE---VVQ
ParentalGQMKSPDYQGILGRNVLPSVRKLGLSRRSWVFQQDNDPKH-AKNPQEWLREKHWTILKWPSMSPDLNPIE
G.MKS.DY.GIL.RNVLPSVRKL.LSRRSWVFQQ.NDPKH.A.N.Q.WLREK.WTILKWPSMSPDLNPIE
RetrocopyGKMKSQDY*GILDRNVLPSVRKLSLSRRSWVFQQGNDPKHTARNLQ*WLREKRWTILKWPSMSPDLNPIE
ParentalHLWKK-RRHP-SNLRQLEQFAHEEWARIPVDRCRRLIDKYRNSLIAVIASKGCATKY
HLWK.....P.SNLRQLEQFAHEE.A.IPVDRCRRLIDKY.N.LIAVIASKGCATKY
RetrocopyHLWKELKKTP>SNLRQLEQFAHEELAKIPVDRCRRLIDKYKNHLIAVIASKGCATKY

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






Oryzias latipes was not studied using RNA-Seq expression data.
Oryzias latipes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_olat_35 retrocopy.
Oryzias latipes was not studied using FANTOM5 data.
retro_olat_35 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_olat_35 has 0 orthologous retrocopies within teleost group .


Parental genes homology:
Parental genes homology involve 7 parental genes, and 9 retrocopies.

Species Parental gene accession Retrocopies number
Oryzias latipes ENSORLG000000108911 retrocopy
Oryzias latipes ENSORLG000000133532 retrocopies
Oryzias latipes ENSORLG00000014457 2 retrocopies
retro_olat_35 , retro_olat_43,
Oryzias latipes ENSORLG000000189221 retrocopy
Oryzias latipes ENSORLG000000196891 retrocopy
Oryzias latipes ENSORLG000000198791 retrocopy
Oryzias latipes ENSORLG000000207261 retrocopy



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