RetrogeneDB ID:

retro_mmus_2178

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:3:87968184..87968603(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Rps14
Ensembl ID:ENSMUSG00000024608
Aliases:Rps14, 2600014J02Rik, AL023078
Description:ribosomal protein S14 [Source:MGI Symbol;Acc:MGI:98107]


Retrocopy-Parental alignment summary:






>retro_mmus_2178
GTGGCACCTCACGAGGGGAAGGAAAAGAGGGAAGAACAGGTCACCAGCCTTGGACCTCAGGTGACTGAAGGAGAGAATGT
ATTTGTTGCCTGTCAGACCTTTGCGTCCTTCAGTGACACCCTTGTCCATGTTACTGATCTTTCTGGCAAGGAAACCGTCT
GCCGTGTGACTGGCAGGATGAAGGTAAAGGCTGCCTGAGATGAGTCCTCTCCGTATGCAGCCATGTTGGCTGCCCAGGAT
GTTGCCCAGAGGTGCAAGGGGCTGGGCATCACCACCCTGTGTATCAAACTCCGGGCCACAGGAGGAAACAGGACCAAGAC
CCCAGGACCTGGAGCCCAGTCAGCCCTCAGAGCTCTGGGATGAGGATTGGGCAGATAGAAGTTGTCATCCCCATCCCCTC
TGACAGCACTGGAAGGAAG

ORF - retro_mmus_2178 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.86 %
Parental protein coverage: 94.7 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMAPRKGKEKKEEQVISLGPQVAEGENVFGVCHIFASFNDTFVHVTDLSGKETICRVTGGMKVKADRDESS
.AP..GKEK.EEQV.SLGPQV.EGENVF..C..FASF.DT.VHVTDLSGKET.CRVTG.MKVKA..DESS
RetrocopyVAPHEGKEKREEQVTSLGPQVTEGENVFVACQTFASFSDTLVHVTDLSGKETVCRVTGRMKVKAA*DESS
ParentalPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGPGAQSALRALARSGMKIGR-IEDVTPIPSDS
PYAAMLAAQDVAQRCK.LGIT.L.IKLRATGGNRTKTPGPGAQSALRAL...G...GR.IE.V.PIPSDS
RetrocopyPYAAMLAAQDVAQRCKGLGITTLCIKLRATGGNRTKTPGPGAQSALRAL---G*GLGR<IEVVIPIPSDS
ParentalTRRK
T.RK
RetrocopyTGRK

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 116 .70 RPM
SRP007412_cerebellum 0 .00 RPM 116 .33 RPM
SRP007412_heart 0 .00 RPM 133 .21 RPM
SRP007412_kidney 0 .02 RPM 171 .55 RPM
SRP007412_liver 0 .00 RPM 111 .72 RPM
SRP007412_testis 0 .00 RPM 156 .43 RPM
RNA Polymerase II actvity near the 5' end of retro_mmus_2178 was not detected
No EST(s) were mapped for retro_mmus_2178 retrocopy.
No TSS is located nearby retro_mmus_2178 retrocopy 5' end.
retro_mmus_2178 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_2178 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 17 parental genes, and 44 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000046442 retrocopies
Bos taurus ENSBTAG000000085702 retrocopies
Canis familiaris ENSCAFG000000180942 retrocopies
Callithrix jacchus ENSCJAG000000209811 retrocopy
Cavia porcellus ENSCPOG000000244082 retrocopies
Erinaceus europaeus ENSEEUG000000104623 retrocopies
Latimeria chalumnae ENSLACG000000161641 retrocopy
Loxodonta africana ENSLAFG000000311952 retrocopies
Myotis lucifugus ENSMLUG000000132794 retrocopies
Macaca mulatta ENSMMUG000000028485 retrocopies
Mustela putorius furoENSMPUG000000137761 retrocopy
Mus musculus ENSMUSG00000024608 5 retrocopies
Nomascus leucogenys ENSNLEG000000103661 retrocopy
Oryctolagus cuniculus ENSOCUG000000115091 retrocopy
Otolemur garnettii ENSOGAG000000007211 retrocopy
Rattus norvegicus ENSRNOG0000001877410 retrocopies
Tursiops truncatus ENSTTRG000000130351 retrocopy



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