RetrogeneDB ID:

retro_mmus_2630

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:5:21119151..21119522(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMUSG00000096269
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:Rpl31
Ensembl ID:ENSMUSG00000073702
Aliases:None
Description:ribosomal protein L31 [Source:MGI Symbol;Acc:MGI:2149632]


Retrocopy-Parental alignment summary:






>retro_mmus_2630
TTGGCTCCCGCAAAGAAGGGTGGAGAGAGGAAGAAGGGCCGTTCTGCCATCAACAAGGTGGTGACCAGAGAATACACCAT
CAACATTCACAAGCGCATCCATGGAGTGGGCTTCAAGAAGCATGTTCCTCGGGCACTCACAGAAATTCTGAAGTTTGCAA
TGAAGGAAATGGGGACACCAGATGTGCGCATTGACACCAGGCTCAATAAAACCATCTGGGTCAAGGGAATAATGAATGTT
CCACATCGCAGCCGAGTACGTTTGTCCAGAAAATGTAATGAGGATGAGGATTCATCAGACAAGCTCTACACTGGTAACTT
ACTGCCTGTTACCACATTCAAAAATCTATAAATGGCCAATATGATGAGAAT

ORF - retro_mmus_2630 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.37 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMAPAKKGGEKKKGRSAINEVVTREYTINIHKRIHGVGFKKRAPRALKEIRKFAMKEMGTPDVRIDTRLNK
.APAKKGGE.KKGRSAIN.VVTREYTINIHKRIHGVGFKK..PRAL.EI.KFAMKEMGTPDVRIDTRLNK
RetrocopyLAPAKKGGERKKGRSAINKVVTREYTINIHKRIHGVGFKKHVPRALTEILKFAMKEMGTPDVRIDTRLNK
ParentalAVWAKGIRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNV-DEN
..W.KGI.NVP.R.RVRLSRK.NEDEDS..KLYT.....PVTTFKNL...N..DEN
RetrocopyTIWVKGIMNVPHRSRVRLSRKCNEDEDSSDKLYT-GNLLPVTTFKNL*MANM<DEN

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 .00 RPM 69 .15 RPM
SRP007412_cerebellum 0 .00 RPM 44 .55 RPM
SRP007412_heart 0 .00 RPM 65 .62 RPM
SRP007412_kidney 0 .00 RPM 77 .00 RPM
SRP007412_liver 0 .00 RPM 55 .14 RPM
SRP007412_testis 0 .00 RPM 58 .23 RPM
RNA Polymerase II actvity near the 5' end of retro_mmus_2630 was not detected
No EST(s) were mapped for retro_mmus_2630 retrocopy.
No TSS is located nearby retro_mmus_2630 retrocopy 5' end.
retro_mmus_2630 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_2630 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 7 parental genes, and 104 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000197019 retrocopies
Latimeria chalumnae ENSLACG000000136031 retrocopy
Macropus eugenii ENSMEUG000000009638 retrocopies
Microcebus murinus ENSMICG0000001605915 retrocopies
Myotis lucifugus ENSMLUG0000000250721 retrocopies
Mus musculus ENSMUSG00000073702 41 retrocopies
Oryctolagus cuniculus ENSOCUG000000023929 retrocopies



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