RetrogeneDB ID:

retro_fcat_1579

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:D4:34753163..34753462(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSFCAG00000004853
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_fcat_1579
GTTGTGAAGGATGGTGCTATTGGTAAGATAAGTCTTGGTATCCTATCCAACAGTTTAATGTCTGAATATGTTCAATGGTT
TTTGACAACTATGCAGTCACAGTTGTGATTGATGGGAGCCATACATGTTTGGACTTTTTGATCCCAGAGGCAAGAAAAAT
TTGACAGAATAACCCCTCTGCTATTCACAAACAGACATATTTCTAGTTTCTTTTTTAGTTAGTACCCTCGTCTGAAAATA
TGAGAGAAAAGTGGGTACCTAAGATAATTCTCCATTGTCTGAAGACTTCTAGTTTGTTG

ORF - retro_fcat_1579 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 57.41 %
Parental protein coverage: 54.97 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalVVGDGAVGKTCLLISYTTNKFPSEYVP-TVFDNYAVTVMIGG-EPYTLGLFDTAGQEDYDRLRPLSYPQT
VV.DGA.GK..L.I....N...SEYV...VFDNYAVTV.I.G.EPY..GLFD..G........PL.Y.QT
RetrocopyVVKDGAIGKISLGI--LSNSLMSEYVQ<MVFDNYAVTVVIDG<EPYMFGLFDPRGKKNLTE*-PLCYSQT
ParentalDVFLVCFSVVS-PSSFENVKEKWVPEITHHCPKTPFLL
D.FLV.F..VS.PSS.EN..EKWVP.I..HC.KT..LL
RetrocopyDIFLVSF-LVS>PSS-ENMREKWVPKIILHCLKTSSLL

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 .46 RPM 50 .27 RPM
SRP017611_kidney 0 .10 RPM 38 .65 RPM
SRP017611_liver 0 .10 RPM 17 .29 RPM
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_1579 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_1579 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 32 parental genes, and 127 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000147075 retrocopies
Choloepus hoffmanni ENSCHOG0000000530610 retrocopies
Callithrix jacchus ENSCJAG000000059126 retrocopies
Cavia porcellus ENSCPOG000000065434 retrocopies
Dipodomys ordii ENSDORG000000103743 retrocopies
Equus caballus ENSECAG000000191801 retrocopy
Echinops telfairi ENSETEG000000044431 retrocopy
Felis catus ENSFCAG00000004853 4 retrocopies
Felis catus ENSFCAG000000113612 retrocopies
Felis catus ENSFCAG000000116711 retrocopy
Felis catus ENSFCAG000000156081 retrocopy
Felis catus ENSFCAG000000257762 retrocopies
Homo sapiens ENSG000000708316 retrocopies
Gorilla gorilla ENSGGOG000000244395 retrocopies
Myotis lucifugus ENSMLUG000000133654 retrocopies
Macaca mulatta ENSMMUG000000220098 retrocopies
Monodelphis domestica ENSMODG000000160783 retrocopies
Mustela putorius furoENSMPUG000000159992 retrocopies
Mus musculus ENSMUSG000000066993 retrocopies
Nomascus leucogenys ENSNLEG000000081984 retrocopies
Oryctolagus cuniculus ENSOCUG000000099861 retrocopy
Otolemur garnettii ENSOGAG000000142611 retrocopy
Ochotona princeps ENSOPRG000000053312 retrocopies
Pongo abelii ENSPPYG000000017556 retrocopies
Rattus norvegicus ENSRNOG000000135361 retrocopy
Sorex araneus ENSSARG000000051843 retrocopies
Sus scrofa ENSSSCG000000035201 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000008054 retrocopies
Tupaia belangeri ENSTBEG0000000261417 retrocopies
Tarsius syrichta ENSTSYG0000000067911 retrocopies
Tursiops truncatus ENSTTRG000000057082 retrocopies
Vicugna pacos ENSVPAG000000069193 retrocopies



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