RetrogeneDB ID:

retro_ocun_1476

Retrocopy
location
Organism:Rabbit (Oryctolagus cuniculus)
Coordinates:9:58601603..58601894(+)
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:ENSOCUG00000029674
Aliases:None
Description:ribosomal protein L37 [Source:HGNC Symbol;Acc:10347]


Retrocopy-Parental alignment summary:






>retro_ocun_1476
ATGACGAAGGGGACGTCATCGTTTGGAAAGCGTCGCAACAAGACGCACACGCTGTGCCGCCGCTGCGGCTCTAAGGCCTA
CCACCTTCAGAAGTCGACCTGTGGCAAATGTGGCTACCCTGCCAAGCGCAAGAGAAAGTAGTTATGGAGTGCCAAGGCTA
AAAGACGAAATACCACTGGGACTGGTCGGATGAGGCACCTAAAAATTGTATACCGCAGATTCAGGCATGGATTCCGTGAA
GGAACAACACCTAAACCCAAGAGGGCAGCTGTTGCAGCATCCAGTTCATCT

ORF - retro_ocun_1476 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 97.94 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMTKGTSSFGKRRNKTHTLCRRCGSKAYHLQKSTCGKCGYPAKRKRKYNWSAKAKRRNTTGTGRMRHLKIV
MTKGTSSFGKRRNKTHTLCRRCGSKAYHLQKSTCGKCGYPAKRKRK..WSAKAKRRNTTGTGRMRHLKIV
RetrocopyMTKGTSSFGKRRNKTHTLCRRCGSKAYHLQKSTCGKCGYPAKRKRK*LWSAKAKRRNTTGTGRMRHLKIV
ParentalYRRFRHGFREGTTPKPKRAAVAASSSS
YRRFRHGFREGTTPKPKRAAVAASSSS
RetrocopyYRRFRHGFREGTTPKPKRAAVAASSSS

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
SRP017611_brain 0 .50 RPM 77 .48 RPM
SRP017611_kidney 0 .91 RPM 140 .18 RPM
SRP017611_liver 0 .23 RPM 43 .39 RPM
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_1476 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_1476 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ocun_1476 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 ENSMUSG0000004184128 retrocopies
Oryctolagus cuniculus ENSOCUG00000029674 11 retrocopies
Otolemur garnettii ENSOGAG000000343007 retrocopies
Rattus norvegicus ENSRNOG000000125386 retrocopies
Sus scrofa ENSSSCG000000258835 retrocopies



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