RetrogeneDB ID:

retro_fcat_279

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:A1:168047565..168048113(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSFCAG00000024833
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSFCAG00000004218
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_fcat_279
ATAGGTAAAGGAGACCCCAACAAGCTGCTGGACACGATGTCCTCAGATGCCTTTTTCATACAGATCTACCGGGAAGAGCA
CAGGAAGAAACATCCAGACTCTTCTATCAATCTCACCAAATTCTCCAAGAAATGTTCAGAGAGATGGAAGACCATGTCTG
CAAAGGAAAAGTCGAAATTTGAAGGTATGGTAAAAAGGGACAAAGCTCGCTCACAGATGAAAAATTGTGTTTCTCCCAAA
AGGTGACAAGAAAGGAAAGAAAGAAGATCCCAATGCTCCTAAAAGGTCTCCGTCTGCTTTCTTATTGTTTTGTTCTGAAC
ATCATCCAAAGATCAAAAGTGAACACTGTGTTTTATCCATTGGGGATACTGCAAAAAAATGGGGTGTAATGTGGTCTGAA
CAGTCAGCCAAAGAAGGTAAGCAACTATATGACCTGAAAGCAGCTAAAGCTAAAGGAGAAATATGAAAAGGAAATTGCTG
CATTTCGTGCCAAGGGCAAAAGTGAAACAGGAAAGAGGGGCCTTAGCAGACCAATAGGTTCAAAGAAA

ORF - retro_fcat_279 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.81 %
Parental protein coverage: 87.14 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMGKGDPNKPRGKMSSYAFFVQTCREEHKKKHPDSSVNFAEFSKKCSERWKTMSAKEKSKFEDMAKSDKAR
.GKGDPNK....MSS.AFF.Q..REEH.KKHPDSS.N...FSKKCSERWKTMSAKEKSKFE.M.K.DKAR
RetrocopyIGKGDPNKLLDTMSSDAFFIQIYREEHRKKHPDSSINLTKFSKKCSERWKTMSAKEKSKFEGMVKRDKAR
ParentalYDREMKNYVP-PKGDKKGKKKDPNAPKRPPSAFFLFCSEHRPKIKSEHPGLSIGDTAKKLGEMWSEQSAK
....MKN.V..PKGDKKGKK.DPNAPKR.PSAF.LFCSEH.PKIKSEH..LSIGDTAKK.G.MWSEQSAK
Retrocopy--SQMKNCVS>PKGDKKGKKEDPNAPKRSPSAFLLFCSEHHPKIKSEHCVLSIGDTAKKWGVMWSEQSAK
ParentalD-KQPYEQKAA-KLKEKYEKDIAAYRAKGKSEAGKKGPGRPTGSKK
..KQ.Y..KAA.KLKEKYEK.IAA.RAKGKSE.GK.G..RP.GSKK
RetrocopyEGKQLYDLKAA>KLKEKYEKEIAAFRAKGKSETGKRGLSRPIGSKK

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 6 .08 RPM
SRP017611_kidney 0 .00 RPM 10 .00 RPM
SRP017611_liver 0 .00 RPM 6 .77 RPM
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_279 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_279 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 27 parental genes, and 105 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000151011 retrocopy
Callithrix jacchus ENSCJAG000000051122 retrocopies
Cavia porcellus ENSCPOG000000035524 retrocopies
Dasypus novemcinctus ENSDNOG000000194404 retrocopies
Erinaceus europaeus ENSEEUG000000122388 retrocopies
Echinops telfairi ENSETEG000000103793 retrocopies
Echinops telfairi ENSETEG000000163791 retrocopy
Felis catus ENSFCAG0000000020010 retrocopies
Felis catus ENSFCAG00000004218 2 retrocopies
retro_fcat_279 , retro_fcat_52,
Felis catus ENSFCAG000000246244 retrocopies
Homo sapiens ENSG000001641041 retrocopy
Gorilla gorilla ENSGGOG000000158821 retrocopy
Loxodonta africana ENSLAFG000000104173 retrocopies
Macropus eugenii ENSMEUG000000022563 retrocopies
Myotis lucifugus ENSMLUG000000263034 retrocopies
Monodelphis domestica ENSMODG000000035273 retrocopies
Mustela putorius furoENSMPUG000000019199 retrocopies
Mus musculus ENSMUSG0000005471723 retrocopies
Nomascus leucogenys ENSNLEG000000066623 retrocopies
Oryctolagus cuniculus ENSOCUG000000000741 retrocopy
Otolemur garnettii ENSOGAG000000171493 retrocopies
Pongo abelii ENSPPYG000000152043 retrocopies
Pan troglodytes ENSPTRG000000165973 retrocopies
Pteropus vampyrus ENSPVAG000000146561 retrocopy
Rattus norvegicus ENSRNOG000000131672 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000239802 retrocopies
Tursiops truncatus ENSTTRG000000156501 retrocopy



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