RetrogeneDB ID:

retro_mmus_2838

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:6:72688016..72688215(-)
Located in intron of:ENSMUSG00000055799
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Rpl37
Ensembl ID:ENSMUSG00000041841
Aliases:Rpl37, 3110005M08Rik
Description:ribosomal protein L37 [Source:MGI Symbol;Acc:MGI:1914531]


Retrocopy-Parental alignment summary:






>retro_mmus_2838
TGTGGCTCCAAGGCCTACCACCTTCAGAAGTTGACCTGTGGCAAATATAACTGGAGTGCCAAGGCTAAGAGGTGAAATAC
TACCAGGACTGGTCAGATGAGGCACCTAAAAATTGTTTATCACAGATTCAGACGTGGATTCCATGGAAGGAACAACACCT
AAACCCAAGAGGGCAGCTGTTGCAGCATCCAGTTCATCT

ORF - retro_mmus_2838 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.13 %
Parental protein coverage: 65.98 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalCGKCGYPAKRKR--KYNWSAKAKRRNTTGTGRMRHLKIVYRRFRHGFR-EGTTPKPKRAAVAASSSS
CG...Y........KYNWSAKAKR.NTT.TG.MRHLKIVY.RFR.GF..EGTTPKPKRAAVAASSSS
RetrocopyCGSKAYHLQKLTCGKYNWSAKAKR*NTTRTGQMRHLKIVYHRFRRGFH>EGTTPKPKRAAVAASSSS

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 65 .70 RPM
SRP007412_cerebellum 0 .00 RPM 37 .21 RPM
SRP007412_heart 0 .00 RPM 58 .93 RPM
SRP007412_kidney 0 .00 RPM 45 .29 RPM
SRP007412_liver 0 .00 RPM 67 .59 RPM
SRP007412_testis 0 .18 RPM 51 .18 RPM
RNA Polymerase II actvity near the 5' end of retro_mmus_2838 was not detected
No EST(s) were mapped for retro_mmus_2838 retrocopy.
No TSS is located nearby retro_mmus_2838 retrocopy 5' end.
retro_mmus_2838 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_2838 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 11 parental genes, and 96 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000051426 retrocopies
Callithrix jacchus ENSCJAG0000000738810 retrocopies
Latimeria chalumnae ENSLACG000000027871 retrocopy
Loxodonta africana ENSLAFG0000003005213 retrocopies
Macaca mulatta ENSMMUG000000238076 retrocopies
Monodelphis domestica ENSMODG000000203013 retrocopies
Mus musculus ENSMUSG00000041841 28 retrocopies
Oryctolagus cuniculus ENSOCUG0000002967411 retrocopies
Otolemur garnettii ENSOGAG000000343007 retrocopies
Rattus norvegicus ENSRNOG000000125386 retrocopies
Sus scrofa ENSSSCG000000258835 retrocopies



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