RetrogeneDB ID:

retro_fcat_876

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:B3:138576329..138576559(+)
Located in intron of:ENSFCAG00000010233
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:UBA52
Ensembl ID:ENSFCAG00000009745
Aliases:UBA52, CEP52, UBCEP2
Description:Ubiquitin-60S ribosomal protein L40 Ubiquitin 60S ribosomal protein L40 [Source:UniProtKB/Swiss-Prot;Acc:P63052]


Retrocopy-Parental alignment summary:






>retro_fcat_876
CTAAGTTTTGCGGGCAAACAGCTGGAGGATGGCCGTCCTCTCTCAGGCTACGATGTCCAGGAAGAGTCACCCTGTGCTCG
CTGTGTCACCTGGGAGGTGGCATCGCTGGGCCTTCCCACCGCCAGCCGGCCCAGGAATGGGACTATGACAAGGTCATCTG
CTGCAAGTGCCGGTCTCGCCTGGGTCCCCATGCTGTCACCCGCCACAAGCACTGTTCCCCAAGAAGAAAC

ORF - retro_fcat_876 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 55.7 %
Parental protein coverage: 60.94 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalLIFAGKQLEDGRTLSDYNIQKES-TLHLVLRLRGGIIEPSLRQLAQKYNCDKMICRKCYARLHPRAVNCR
L.FAGKQLEDGR.LS.Y..Q.ES.TL.....L.GGI..PS.RQ.AQ....DK.IC.KC..RL.P.AV..R
RetrocopyLSFAGKQLEDGRPLSGYDVQEES<TLCSLCHLGGGIAGPSHRQPAQEWDYDKVICCKCRSRLGPHAVT-R
ParentalKKKCGHTNN
.K.C....N
RetrocopyHKHCSPRRN

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 .00 RPM 56 .81 RPM
SRP017611_kidney 0 .00 RPM 162 .11 RPM
SRP017611_liver 0 .00 RPM 106 .65 RPM
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_876 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_876 was not experimentally validated.

Retrocopy orthology:
Felis catus 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 17 parental genes, and 110 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000001135610 retrocopies
Bos taurus ENSBTAG000000077373 retrocopies
Callithrix jacchus ENSCJAG0000000747022 retrocopies
Equus caballus ENSECAG000000206608 retrocopies
Felis catus ENSFCAG00000009745 14 retrocopies
Homo sapiens ENSG000002219832 retrocopies
Latimeria chalumnae ENSLACG000000081321 retrocopy
Mustela putorius furoENSMPUG000000155278 retrocopies
Mus musculus ENSMUSG000000901373 retrocopies
Ochotona princeps ENSOPRG000000047846 retrocopies
Pongo abelii ENSPPYG000000097462 retrocopies
Pan troglodytes ENSPTRG000000392238 retrocopies
Rattus norvegicus ENSRNOG000000199747 retrocopies
Sorex araneus ENSSARG0000000098411 retrocopies
Sarcophilus harrisii ENSSHAG000000070753 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000046781 retrocopy
Xiphophorus maculatus ENSXMAG000000039111 retrocopy



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