RetrogeneDB ID:

retro_fcat_644

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:B1:111122832..111123264(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS23
Ensembl ID:ENSFCAG00000008839
Aliases:None
Description:ribosomal protein S23 [Source:HGNC Symbol;Acc:10410]


Retrocopy-Parental alignment summary:






>retro_fcat_644
ATGGGCAAGTGTCGTGGTCTTCATACTGCCAGGAAGCTCCGTAGCCACTGACGAGATCAGAAGTGGTACAATAAACAGTA
CAAGAAAGCCAATTTGGGCACAGTCCTGAAGGCCAACCCTTTTGGAGGCTCTTCCCATGCGAAAGGAATTGTGCTGGAAA
AAAGTAGGGGTTGAAGCCAAACGGCCAAATTCTGCCATCAGGAAGTGTGTCAGAGTCCAGCTGATCAAGAATGGCAAGAA
AATCACCGCCTTTGTACCCAATGATGGTTGTTTGAATTTTATCGAGGAAAACGGTGAGGTTCTGGTTGCTGGATTTGGTT
GCAAAGGTCATGCTGTTGGTGACATTCCTGGAGTTTGCTTTAAGGTCGTCAAAGTAGCCAATGTCTCTCTCTTTTGGCCT
TATACAAAGGCAAGAAGCAAAGACCAAGATCT

ORF - retro_fcat_644 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.93 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalLGKCRGLRTARKLRSHRRDQKWHDKQYKKAHLGTALKANPFGGASHAKGIVLEK-VGVEAKQPNSAIRKC
.GKCRGL.TARKLRSH.RDQKW..KQYKKA.LGT.LKANPFGG.SHAKGIVLEK.VGVEAK.PNSAIRKC
RetrocopyMGKCRGLHTARKLRSH*RDQKWYNKQYKKANLGTVLKANPFGGSSHAKGIVLEK>VGVEAKRPNSAIRKC
ParentalVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLVAGFGRKGHAVGDIPGVRFKVVKVANVSLLALY-KGKK
VRVQLIKNGKKITAFVPNDGCLNFIEEN.EVLVAGFG.KGHAVGDIPGV.FKVVKVANVSL...Y.K...
RetrocopyVRVQLIKNGKKITAFVPNDGCLNFIEENGEVLVAGFGCKGHAVGDIPGVCFKVVKVANVSLFWPYTKARS
ParentalE-RPRS
..RPRS
RetrocopyK<RPRS

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 .11 RPM 68 .40 RPM
SRP017611_kidney 1 .13 RPM 285 .57 RPM
SRP017611_liver 0 .40 RPM 97 .15 RPM
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_644 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_644 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 25 parental genes, and 107 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000111361 retrocopy
Ailuropoda melanoleuca ENSAMEG000000159663 retrocopies
Bos taurus ENSBTAG000000133583 retrocopies
Callithrix jacchus ENSCJAG000000112472 retrocopies
Cavia porcellus ENSCPOG000000227052 retrocopies
Dipodomys ordii ENSDORG000000018132 retrocopies
Equus caballus ENSECAG000000205232 retrocopies
Erinaceus europaeus ENSEEUG000000018497 retrocopies
Felis catus ENSFCAG00000008839 7 retrocopies
Loxodonta africana ENSLAFG000000315063 retrocopies
Macropus eugenii ENSMEUG000000129311 retrocopy
Microcebus murinus ENSMICG000000139642 retrocopies
Myotis lucifugus ENSMLUG000000139392 retrocopies
Macaca mulatta ENSMMUG000000035784 retrocopies
Oryctolagus cuniculus ENSOCUG000000103632 retrocopies
Otolemur garnettii ENSOGAG0000000816311 retrocopies
Pan troglodytes ENSPTRG000000170526 retrocopies
Pteropus vampyrus ENSPVAG000000020834 retrocopies
Rattus norvegicus ENSRNOG0000001658012 retrocopies
Sorex araneus ENSSARG000000089048 retrocopies
Sarcophilus harrisii ENSSHAG000000083472 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000008243 retrocopies
Tarsius syrichta ENSTSYG000000113855 retrocopies
Tursiops truncatus ENSTTRG000000144916 retrocopies
Vicugna pacos ENSVPAG000000094277 retrocopies



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