RetrogeneDB ID:

retro_mmus_544

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:10:30373878..30374514(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Mkrn2
Ensembl ID:ENSMUSG00000000439
Aliases:Mkrn2, 2610002L04Rik, C81377
Description:makorin, ring finger protein, 2 [Source:MGI Symbol;Acc:MGI:1914277]


Retrocopy-Parental alignment summary:






>retro_mmus_544
GACCCAGAACAAAGGAAAGCTCATGAGAAGATGTGTATGTTGACATTTGAACATGAGATGGACAAGGCGTTTGCCTTCCA
GGCGAGCCAGGACAAAGTGTGCAGCATCTGTATGGAGGTGATCCTTGAGAAAGCATCTGCTTTTGAGAGGAGTTTTGGCG
TTCTCTCCAACTGCAGCCGCACCTACTGCCTGTCCTGCATCCATCAATGGCAATGTGCCAAACAGTTTGAAAACCTGATC
ATAAAGTCTTGTCCAGAGTGCCGTGTGATATCAGAGTTTGTAATTCCAAGTGTGTATTGGGTAGAAAATCGGAATAAAAG
GAATGAATTAATTGAAGCTTTCAAACGGGGAATGAGGGAAAAGGCATGTAAATACTTTGAACAAGACAAGGGGACCTGCC
CCTTTGGAAGCAAGTGCCTTTACCACCATGCTTACCCTCATGGGCGGCTGGCAGAGCCAGAGAAACCTCGGAAGCAGCTA
AACTCTGAAGGAACTGTGAGGTTCTTTAACTCAGTGTGGCTTTGGGATTTTATCGAGAACCAAGAAACCCGGCAAGTCCC
CAGCACTGATAATGTGGATGTGATAGTGCTAGGAGGCCTTTTCATGCACCTTTCTGGAGTAGAGTCATCAGAACCC

ORF - retro_mmus_544 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.21 %
Parental protein coverage: 50.96 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalDPEQRKAHEKMCMSTFEHEMEKAFAFQASQDKVCSICMEVILEKASASERRFGILSNCSHTYCLSCIRQW
DPEQRKAHEKMCM.TFEHEM.KAFAFQASQDKVCSICMEVILEKASA.ER.FG.LSNCS.TYCLSCI.QW
RetrocopyDPEQRKAHEKMCMLTFEHEMDKAFAFQASQDKVCSICMEVILEKASAFERSFGVLSNCSRTYCLSCIHQW
ParentalRCAKQFENPIIKSCPECRVISEFVIPSVYWVEDQNKKNELIEAFKQGMGKKACKYFEQGKGTCPFGSKCL
.CAKQFEN.IIKSCPECRVISEFVIPSVYWVE..NK.NELIEAFK.GM..KACKYFEQ.KGTCPFGSKCL
RetrocopyQCAKQFENLIIKSCPECRVISEFVIPSVYWVENRNKRNELIEAFKRGMREKACKYFEQDKGTCPFGSKCL
ParentalYRHAYPDGRLAEPEKPRKQLSSEGTVRFFNSVRLWDFIENRETRQVPSTDDVDVTELGDLFMHLSGVESS
Y.HAYP.GRLAEPEKPRKQL.SEGTVRFFNSV.LWDFIEN.ETRQVPSTD.VDV..LG.LFMHLSGVESS
RetrocopyYHHAYPHGRLAEPEKPRKQLNSEGTVRFFNSVWLWDFIENQETRQVPSTDNVDVIVLGGLFMHLSGVESS
ParentalEP
EP
RetrocopyEP

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






(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 .02 RPM 20 .19 RPM
SRP007412_cerebellum 0 .00 RPM 19 .76 RPM
SRP007412_heart 0 .00 RPM 26 .99 RPM
SRP007412_kidney 0 .00 RPM 18 .23 RPM
SRP007412_liver 0 .00 RPM 9 .99 RPM
SRP007412_testis 0 .00 RPM 62 .62 RPM
RNA Polymerase II actvity near the 5' end of retro_mmus_544 was not detected
No EST(s) were mapped for retro_mmus_544 retrocopy.
No TSS is located nearby retro_mmus_544 retrocopy 5' end.
retro_mmus_544 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_544 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 5 parental genes, and 6 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000167331 retrocopy
Mus musculus ENSMUSG00000000439 2 retrocopies
retro_mmus_3578, retro_mmus_544 ,
Mus musculus ENSMUSG000000299221 retrocopy
Otolemur garnettii ENSOGAG000000032551 retrocopy
Pteropus vampyrus ENSPVAG000000058221 retrocopy



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