RetrogeneDB ID:

retro_pcap_270

Retrocopy
location
Organism:Hyrax (Procavia capensis)
Coordinates:scaffold_247:74726..74981(-)
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:ENSPCAG00000007672
Aliases:None
Description:ribosomal protein L37 [Source:HGNC Symbol;Acc:10347]


Retrocopy-Parental alignment summary:






>retro_pcap_270
AAGTCATTCGGACTGTGCCCCTGCCGTGGTTCTAAACCTGACCACCTGCAGAAGTTGAACTGGGGTGAACGTGGCTCCTC
TACTAAGCACAAGAGAAAGTGTAAGTCTAGTGTCAAGGCTAAAAGATGAAATTTCACTGCTACTGATGGAATGAGACACC
TAAAAATGGTATACCACAGCTTCCAGCATAGATTCGGGAGGGAAAGAATAACATCTCAACCCAAGACGGGGGCTGTTGCA
GCATCTGGTACAGCT

ORF - retro_pcap_270 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 51.76 %
Parental protein coverage: 80.77 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalKTHTLCRRCGSKAYHLQKSTCGKCGYPAKRKRKYNWSAKAKRRNTTGTGRMRHLKIVYRRFRHGF-REGT
K...LC...GSK..HLQK...G..G...K.KRK...S.KAKR.N.T.T..MRHLK.VY..F.H.F.RE..
RetrocopyKSFGLCPCRGSKPDHLQKLNWGERGSSTKHKRKCKSSVKAKR*NFTATDGMRHLKMVYHSFQHRFGRERI
ParentalTPKPKRAAVAASSSS
T..PK..AVAAS...
RetrocopyTSQPKTGAVAASGTA

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Procavia capensis was not studied using RNA-Seq expression data.
Procavia capensis was not studied using ChIP-Seq data.
Procavia capensis was not studied using EST data.
Procavia capensis was not studied using FANTOM5 data.
retro_pcap_270 was not experimentally validated.

Retrocopy orthology:
Procavia capensis does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 16 parental genes, and 144 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000001542414 retrocopies
Bos taurus ENSBTAG000000051426 retrocopies
Callithrix jacchus ENSCJAG0000000738810 retrocopies
Equus caballus ENSECAG000000269055 retrocopies
Echinops telfairi ENSETEG0000000346323 retrocopies
Gorilla gorilla ENSGGOG0000000324119 retrocopies
Latimeria chalumnae ENSLACG000000027871 retrocopy
Macropus eugenii ENSMEUG000000119383 retrocopies
Macaca mulatta ENSMMUG000000238076 retrocopies
Monodelphis domestica ENSMODG000000203013 retrocopies
Otolemur garnettii ENSOGAG000000343007 retrocopies
Procavia capensis ENSPCAG00000007672 5 retrocopies
Pteropus vampyrus ENSPVAG000000009218 retrocopies
Rattus norvegicus ENSRNOG000000125386 retrocopies
Tarsius syrichta ENSTSYG0000000620821 retrocopies
Tursiops truncatus ENSTTRG000000109267 retrocopies



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