RetrogeneDB ID:

retro_fcat_578

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:B1:145393214..145393625(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SNRPC
Ensembl ID:ENSFCAG00000005876
Aliases:None
Description:small nuclear ribonucleoprotein polypeptide C [Source:HGNC Symbol;Acc:11157]


Retrocopy-Parental alignment summary:






>retro_fcat_578
AGGCACACCGCACAAAGTGGTAGAAAACACAAAGAGAATGTGAACGACTACCAGAAACAGACGGAAGAGTAGGCTCAGAG
TCTGACCTGACCAAACAACCACAGCATTTCAAAAAGGAAAGATCCCTTCTACTCCCTTCTCTCTTCTTCCTCCTGCAGGG
GCAATGAGCCCACCACCCCCAGTGTCCCTGTCCTCCTCACCCTGGTATGATACCAGCACCTCCCATGGGGAGCCCTTCCG
TGATGCCAGTGATGGGCCCTCCTTCTCCTGTGATGATGCCAGGGGGCCCTGCTTCTGGAATGAGGGGCACCTATGGGAGG
CCATGTGCCAATGACTCCTGGTATCCCAGTGATGAGACCTCCCGCCGGTCCCAGGATGCTGCCCCCTCTGCAGGGAATGA
CTCAACAAGAC

ORF - retro_fcat_578 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 67.61 %
Parental protein coverage: 86.79 %
Number of stop codons detected: 1
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalRKTHCSGRKHKENVKDYYQKWMEEQAQSLI-DKTTAAFQQGKIPPTPFSAPPPAGAMIPPP-PSLPG-PP
R.T..SGRKHKENV.DY.QK..EE.AQSL..D.TT.AFQ.GKIP.TPFS..PPAGAM.PPP.PS.P..PP
RetrocopyRHTAQSGRKHKENVNDY-QKQTEE*AQSLT>DQTTTAFQKGKIPSTPFSLLPPAGAMSPPP<PSVPV<PP
ParentalRPGMMPAPHMGGPPMMPMMGPPPPGMMPVGPAPGMR-PPMGGHMPMMPGPPMMRPPARPMMVPTRPGMTR
.PGM.PAP.MG.P..MP.MGPP.P.MMP.GPA.GMR..PMGGH.PM.PG.P.MRPPA.P.M.P...GMT.
RetrocopyHPGMIPAPPMGSPSVMPVMGPPSPVMMPGGPASGMR>APMGGHVPMTPGIPVMRPPAGPRMLPPLQGMTQ
ParentalPD
.D
RetrocopyQD

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 8 .95 RPM
SRP017611_kidney 0 .00 RPM 8 .66 RPM
SRP017611_liver 0 .00 RPM 6 .37 RPM
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_578 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_578 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 21 parental genes, and 112 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000009637 retrocopies
Canis familiaris ENSCAFG000000012313 retrocopies
Callithrix jacchus ENSCJAG0000001532116 retrocopies
Cavia porcellus ENSCPOG000000085633 retrocopies
Felis catus ENSFCAG00000005876 12 retrocopies
Gorilla gorilla ENSGGOG000000124997 retrocopies
Myotis lucifugus ENSMLUG000000024888 retrocopies
Macaca mulatta ENSMMUG000000008699 retrocopies
Monodelphis domestica ENSMODG000000139041 retrocopy
Mustela putorius furoENSMPUG000000032107 retrocopies
Nomascus leucogenys ENSNLEG000000083922 retrocopies
Oryctolagus cuniculus ENSOCUG000000266683 retrocopies
Otolemur garnettii ENSOGAG000000087559 retrocopies
Procavia capensis ENSPCAG000000168851 retrocopy
Pongo abelii ENSPPYG000000172724 retrocopies
Pongo abelii ENSPPYG000000299023 retrocopies
Pan troglodytes ENSPTRG000000180706 retrocopies
Pteropus vampyrus ENSPVAG000000155971 retrocopy
Sarcophilus harrisii ENSSHAG000000009451 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000137863 retrocopies
Tarsius syrichta ENSTSYG000000112166 retrocopies



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