RetrogeneDB ID:

retro_fcat_222

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:A1:34009717..34010077(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS18
Ensembl ID:ENSFCAG00000004013
Aliases:None
Description:ribosomal protein S18 [Source:HGNC Symbol;Acc:10401]


Retrocopy-Parental alignment summary:






>retro_fcat_222
GTTAAGAGTGTGGAGTGAAGGTACTCTCCTGTGGTGTTGAGGAAAACAGACTCTGACATCACCAAGAGGGCAGGAGAGCT
CACCGATGATGAGGTGGAATGTGTGACCGCCATTATGCAGAATCCATGAAGGTAGAAGAAGCCCAGACTGGTTCTTGAAC
AGACAAAAGAATGTGAAGGACGGAAAAATACAGCCATGTCCTGGCCAACAGTCTGTACAACAAATTTTGCCAAGACCTGG
AGGGACTGAAGAAGACCCAGGCCCTCAAAATGCTTCACCACTTCTGAAACTTCATGTTGGAGGCTGGCGCACAAGACCAC
AGGCCACTGTGGCTGCACTGTGGGTGTGTCCAAGAAGAAA

ORF - retro_fcat_222 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 63.71 %
Parental protein coverage: 78.95 %
Number of stop codons detected: 1
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalIKGVGRRYAHVVLRKADIDLTKRAGELTEDEVERVITIMQNP-RQYKIPDWFLNRQKDVKDG-KYSQVLA
.K.V..RY..VVLRK.D.D.TKRAGELT.DEVE.V..IMQNP......PDWFLNRQK.VKDG.KYS.VLA
RetrocopyVKSVE*RYSPVVLRKTDSDITKRAGELTDDEVECVTAIMQNP>EGRRSPDWFLNRQKNVKDG>KYSHVLA
ParentalNGLDNKLREDLERLKKIRAHRGLRHF-WGLRVRGQHT-KTTGRRGRTVGVSKKK
N.L.NK...DLE.LKK..A...L.HF...L.V.G..T.KTTG..G.TVGVSKKK
RetrocopyNSLYNKFCQDLEGLKKTQALKMLHHF<LKLHVGGWRT<KTTGHCGCTVGVSKKK

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 116 .49 RPM
SRP017611_kidney 0 .00 RPM 336 .48 RPM
SRP017611_liver 0 .00 RPM 218 .76 RPM
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_222 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_222 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 16 parental genes, and 65 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000029181 retrocopy
Ailuropoda melanoleuca ENSAMEG000000016232 retrocopies
Cavia porcellus ENSCPOG000000196754 retrocopies
Felis catus ENSFCAG00000004013 7 retrocopies
Gorilla gorilla ENSGGOG000000065715 retrocopies
Loxodonta africana ENSLAFG000000321731 retrocopy
Myotis lucifugus ENSMLUG000000073602 retrocopies
Macaca mulatta ENSMMUG000000038671 retrocopy
Mustela putorius furoENSMPUG000000023066 retrocopies
Oryctolagus cuniculus ENSOCUG000000105461 retrocopy
Pongo abelii ENSPPYG0000002595314 retrocopies
Pan troglodytes ENSPTRG000000180391 retrocopy
Rattus norvegicus ENSRNOG000000285054 retrocopies
Sarcophilus harrisii ENSSHAG000000068572 retrocopies
Sarcophilus harrisii ENSSHAG000000086581 retrocopy
Ictidomys tridecemlineatus ENSSTOG0000000241713 retrocopies



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