RetrogeneDB ID:

retro_oana_57

Retrocopy
location
Organism:Platypus (Ornithorhynchus anatinus)
Coordinates:Contig24815:4612..5316(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MYO1F
Ensembl ID:ENSOANG00000031364
Aliases:None
Description:myosin IF [Source:HGNC Symbol;Acc:7600]


Retrocopy-Parental alignment summary:






>retro_oana_57
GAGAAGTCTTGGAGGAAGTTTGTGGCTCGAAAGAAATACATACAAATGAGGAAGGAAGCCTTGGACCTGCTGCTGAACAA
GAAGAAGCGTAGACGCAACAGCCTTAACCGGAACTTTGTCGGCAACTACAAAGGGCTGGACGAGAGCCCAGAGCTGCGCC
AATATGTGGGCAAGTGGGAGAAGATCGACTGTGTCGACAGGGTCACCAAATATGACCGCAGGTTCAAGGGTGTCAAGCAG
GACTCGATCCTGAGGCCGCGCTGCCTCTACCTGATTGGTCGGGAGAAGGTGAAGTAGGGCCCCTCCAAGGGCCAGGTGCA
GGAGGTGCTGAAGCGCCGGATGGAGGTGGAGCGGATCCTGGCCTTGTCGCTCAGCCCGCTGCAGGATGACCTCTTCATCC
TGCACAAGCAGGAGTATGACAGCAAGCTCCAGTCCATCTTCAAAACGGAGTTCCTCAGTCTCCTGGCCAAGTGCTTCCAG
GAGAAGACCCAGAGGCTGCTTCAGCTCACGTTCAGCAACACGCTGGAGCTGAAGCTGAAAAAGGAGAGGTGGGGGCAGTG
GCACACCGGAGGGTCTCACCAGGTGCAGTTCCATCTGCGCCAGGGAATGTGGCCCTCCTCAAGCTCCGTAACAAGATGCT
GCAGGTCAGCATTGGGCCCGGCCTGCTCACAAACACCCGCCCCACACGGAAGAATGTGGCCCAG

ORF - retro_oana_57 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 56.78 %
Parental protein coverage: 52.61 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalQKAWRRHVAVRKYEQMREEASNILLNKKERRKNSLNRNFVGDYLGLEERPELRRFLGKRERVDFADSVTK
.K.WR..VA..KY.QMR.EA...LLNKK.RR.NSLNRNFVG.Y.GL.E.PELR...GK.E..D..D.VTK
RetrocopyEKSWRKFVARKKYIQMRKEALDLLLNKKKRRRNSLNRNFVGNYKGLDESPELRQYVGKWEKIDCVDRVTK
ParentalYDRRFKSIKRDLILTPKHLYVIGREKVKKGPDKGQVQEVLKKHLDIQVLRSVSLSTRQDDFFILHEEAAD
YDRRFK..K.D.IL.P..LY.IGREKVK.GP.KGQVQEVLK...........SLS..QDD.FILH....D
RetrocopyYDRRFKGVKQDSILRPRCLYLIGREKVK*GPSKGQVQEVLKRRMEVERILALSLSPLQDDLFILHKQEYD
ParentalILLESMFKTELLSLLCKRFEEVTQRTLPLTFNDTLQFRVKKEGWG---GGGSRNVNF-SRGSGEMATLKV
..L.S.FKTE.LSLL.K.F.E.TQR.L.LTF..TL....KKE.WG....GGS..V.F.....G..A.LK.
RetrocopySKLQSIFKTEFLSLLAKCFQEKTQRLLQLTFSNTLELKLKKERWGQWHTGGSHQVQF<PSAPGNVALLKL
ParentalSGKTLMVSIGDGLPKSSKPTKKGTPQ
..K.L.VSIG.GL.....PT.K...Q
RetrocopyRNKMLQVSIGPGLLTNTRPTRKNVAQ

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






RNA-Seq - click to see more details

(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain 0 .79 RPM 5 .03 RPM
SRP007412_cerebellum 1 .36 RPM 4 .03 RPM
SRP007412_heart 5 .14 RPM 9 .56 RPM
SRP007412_kidney 1 .78 RPM 3 .55 RPM
SRP007412_liver 0 .90 RPM 4 .52 RPM
SRP007412_testis 0 .12 RPM 1 .66 RPM

ChIP-Seq - click to see more details

Ornithorhynchus anatinus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_oana_57 retrocopy.

TSS - click to see more details

Ornithorhynchus anatinus was not studied using FANTOM5 data.

Lab - click to see more details

retro_oana_57 was not experimentally validated.

Retrocopy orthology:
Ornithorhynchus anatinus 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.
Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Ornithorhynchus anatinus ENSOANG00000031364 1 retrocopy
retro_oana_57 ,




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