RetrogeneDB ID:

retro_cjac_2956

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:7:148993699..148993987(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL37
Ensembl ID:ENSCJAG00000007388
Aliases:None
Description:ribosomal protein L37 [Source:HGNC Symbol;Acc:10347]


Retrocopy-Parental alignment summary:






>retro_cjac_2956
ATGATGAAGGGAACGTCATCATTTGGAAAGCATCGCCATAAGACGCACACGTGCCGCCGCTGCGGCTCTAAAGCCTACCA
CCTTCAAAAGTCGACCTGTGGCAAATGTGGCTACCCTGCCAAGCGCAAGAGAAAGTATAACTGGAGTGCCAAGGCTAAAA
GACGAAATACCACCAGGACTGGTCGAATGAGGCACCTAAAAATTGTATACCTCAGATTCAGGCATGGATTCTGTGAAGGA
ACGACATCTAAATCCAAGAGGGCAGCTGTTACAGCATCCAGTTCATCT

ORF - retro_cjac_2956 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.69 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMTKGTSSFGKRRNKTHTLCRRCGSKAYHLQKSTCGKCGYPAKRKRKYNWSAKAKRRNTTGTGRMRHLKIV
M.KGTSSFGK.R.KTHT.CRRCGSKAYHLQKSTCGKCGYPAKRKRKYNWSAKAKRRNTT.TGRMRHLKIV
RetrocopyMMKGTSSFGKHRHKTHT-CRRCGSKAYHLQKSTCGKCGYPAKRKRKYNWSAKAKRRNTTRTGRMRHLKIV
ParentalYRRFRHGFREGTTPKPKRAAVAASSSS
Y.RFRHGF.EGTT.K.KRAAV.ASSSS
RetrocopyYLRFRHGFCEGTTSKSKRAAVTASSSS

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
SRP051959_colon 0 .40 RPM 80 .81 RPM
SRP051959_heart 0 .70 RPM 63 .02 RPM
SRP051959_kidney 0 .27 RPM 67 .29 RPM
SRP051959_liver 0 .37 RPM 119 .20 RPM
SRP051959_lung 0 .72 RPM 89 .99 RPM
SRP051959_lymph_node 0 .48 RPM 146 .30 RPM
SRP051959_skeletal_muscle 0 .46 RPM 83 .77 RPM
SRP051959_spleen 0 .29 RPM 117 .37 RPM
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_2956 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_2956 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_2956 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 21 parental genes, and 205 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000001542414 retrocopies
Bos taurus ENSBTAG000000051426 retrocopies
Callithrix jacchus ENSCJAG00000007388 10 retrocopies
Equus caballus ENSECAG000000269055 retrocopies
Echinops telfairi ENSETEG0000000346323 retrocopies
Gorilla gorilla ENSGGOG0000000324119 retrocopies
Latimeria chalumnae ENSLACG000000027871 retrocopy
Loxodonta africana ENSLAFG0000003005213 retrocopies
Macropus eugenii ENSMEUG000000119383 retrocopies
Macaca mulatta ENSMMUG000000238076 retrocopies
Monodelphis domestica ENSMODG000000203013 retrocopies
Mus musculus ENSMUSG0000004184128 retrocopies
Oryctolagus cuniculus ENSOCUG0000002967411 retrocopies
Otolemur garnettii ENSOGAG000000343007 retrocopies
Procavia capensis ENSPCAG000000076725 retrocopies
Pteropus vampyrus ENSPVAG000000009218 retrocopies
Rattus norvegicus ENSRNOG000000125386 retrocopies
Sarcophilus harrisii ENSSHAG000000139694 retrocopies
Sus scrofa ENSSSCG000000258835 retrocopies
Tarsius syrichta ENSTSYG0000000620821 retrocopies
Tursiops truncatus ENSTTRG000000109267 retrocopies



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