RetrogeneDB ID:

retro_fcat_805

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:B2:141307086..141307527(-)
Located in intron of:ENSFCAG00000023424
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SSBP1
Ensembl ID:ENSFCAG00000006568
Aliases:None
Description:single-stranded DNA binding protein 1, mitochondrial [Source:HGNC Symbol;Acc:11317]


Retrocopy-Parental alignment summary:






>retro_fcat_805
TTTTGAAAACCTGCATCAGAGCTATTCCATCACTTTGTAAGACAGGAATCTGAAATAGCTAGCAGCTTCGTTCTTGAAAC
ATCTCTTAATCGTACGCAGTTACCTGGGCAAGAGGGTCAGAACCCTGTCATGAGACAGGTGGAAAAGAAAAACCCAGTCA
CAATATTTTCTCTAACAATGAATAAGATGTGGCAATCAGGGGAAAGTGAAACATACCAGATGGGTGATGTCAGTCACAAG
ACAACATAACACAGAATATTAGTATTCCCATCAGGCCTCAGAGATGTGGCATATTAGAATGTGAAAAGGGGGTCCTGTAT
CTATGCCGATGGGAAAGTAGACTACGTTGAACACACAGACAAAAATAATGTGAGGCAAAAAGCAACAACAATCACAGCTG
ATAACACTGTATCTCTGAGCGACCAGAACAAAGAAAAGGCA

ORF - retro_fcat_805 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.14 %
Parental protein coverage: 99.33 %
Number of stop codons detected: 3
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalFRRPVLQVFHQFVRRESEIASSLVLERSLNRVQLLGRVGQDPVMRQVEGKNPVTIFSLATNEMWRSGESE
F..P....FH.FVR.ESEIASS.VLE.SLNR.QL.G..GQ.PVMRQVE.KNPVTIFSL..N.MW.SGESE
RetrocopyF*KPASELFHHFVRQESEIASSFVLETSLNRTQLPGQEGQNPVMRQVEKKNPVTIFSLTMNKMWQSGESE
ParentalVYQMDLGDVSQKTTWHRISVFRPGLRDVAYQYVKKGSRIYVEGKVDYGEYTDKNNVRRQATTIIADNIIF
.YQM..GDVS.KTT.HRI.VF..GLRDVAY..VK.GS.IY..GKVDY.E.TDKNNVR..ATTI.ADN...
RetrocopyTYQM--GDVSHKTT*HRILVFPSGLRDVAY*NVKRGSCIYADGKVDYVEHTDKNNVRQKATTITADNTVS
ParentalLSDQTKEKA
LSDQ.KEKA
RetrocopyLSDQNKEKA

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 .66 RPM
SRP017611_kidney 0 .00 RPM 8 .55 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_805 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_805 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 99 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000151453 retrocopies
Bos taurus ENSBTAG000000109312 retrocopies
Canis familiaris ENSCAFG000000038857 retrocopies
Callithrix jacchus ENSCJAG000000136503 retrocopies
Cavia porcellus ENSCPOG000000033541 retrocopy
Dasypus novemcinctus ENSDNOG0000001586715 retrocopies
Dipodomys ordii ENSDORG000000151612 retrocopies
Equus caballus ENSECAG000000040234 retrocopies
Erinaceus europaeus ENSEEUG000000108372 retrocopies
Felis catus ENSFCAG00000006568 8 retrocopies
Homo sapiens ENSG000001060281 retrocopy
Gorilla gorilla ENSGGOG000000096153 retrocopies
Loxodonta africana ENSLAFG000000115261 retrocopy
Myotis lucifugus ENSMLUG000000071333 retrocopies
Macaca mulatta ENSMMUG000000224423 retrocopies
Mustela putorius furoENSMPUG000000032575 retrocopies
Mus musculus ENSMUSG000000299113 retrocopies
Nomascus leucogenys ENSNLEG000000023612 retrocopies
Otolemur garnettii ENSOGAG000000166619 retrocopies
Procavia capensis ENSPCAG000000033831 retrocopy
Pongo abelii ENSPPYG000000180684 retrocopies
Pan troglodytes ENSPTRG000000197783 retrocopies
Pteropus vampyrus ENSPVAG000000062212 retrocopies
Rattus norvegicus ENSRNOG000000121004 retrocopies
Sus scrofa ENSSSCG000000164883 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000070074 retrocopies
Vicugna pacos ENSVPAG000000036791 retrocopy



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