RetrogeneDB ID:

retro_cfam_1764

Retrocopy
location
Organism:Dog (Canis familiaris)
Coordinates:5:45309049..45309375(-)
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:ENSCAFG00000003257
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cfam_1764
AATGAAAACAATTCAGAATTAGAGAAAATCCAGAAAGAGAAAAACTACTCCTGGATGAACATAATAATCATAGGCAAAGA
TAAACTATCACATTAGAAGAAAAGAATTAAGATGTTTTATGAGGAACATTTGGATGAGGAAATTTGATGTATCTTAGATG
GGACTGGAGATTTTGACATCAGAGATAAAGAGGATGGTGGATCCAGATTTTCATGGAGAACGAAGTAACACTAATACTTT
CTGCAGGAATTTATCACTGCTCTACACTGGATGAAAAGAATTATGTTATTTTCTTCTGACTCTTTGCTGGAGAACCAGTA
TGGACT

ORF - retro_cfam_1764 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 61.61 %
Parental protein coverage: 79.86 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalHENDPELEKIRKERNYSWMDIITISKDKLPNYEEKLRMFYEEHLHVDEEIRYILDGSGYFDVRDKDEK-W
.EN..ELEKI.KE.NYSWM.II.I.KDKL........MFYEEHL..DEEI..ILDG.G.FD.RDK....W
RetrocopyNENNSELEKIQKEKNYSWMNIIIIGKDKLSH*KKRIKMFYEEHL--DEEI*CILDGTGDFDIRDKEDG<W
ParentalIRIFMEKGDMITLPAGIYHRFTLDEKNYVKAMRLFVGQPVWT
I.IFME......L.AGIYH..TLDEKNYV....LF.G.PVWT
RetrocopyIQIFMENEVTLILSAGIYHCSTLDEKNYVIFF*LFAGEPVWT

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
SRP012049_cerebellum 0 .00 RPM 0 .00 RPM
SRP017611_brain 0 .00 RPM 0 .00 RPM
SRP017611_kidney 0 .00 RPM 0 .00 RPM
SRP017611_liver 0 .00 RPM 0 .00 RPM
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_1764 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_1764 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cfam_1764 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 21 parental genes, and 42 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000184322 retrocopies
Canis familiaris ENSCAFG00000003257 3 retrocopies
retro_cfam_1764 , retro_cfam_554, retro_cfam_603,
Choloepus hoffmanni ENSCHOG000000104968 retrocopies
Dasypus novemcinctus ENSDNOG000000075233 retrocopies
Equus caballus ENSECAG000000057651 retrocopy
Echinops telfairi ENSETEG000000158601 retrocopy
Felis catus ENSFCAG000000257632 retrocopies
Homo sapiens ENSG000001825512 retrocopies
Gorilla gorilla ENSGGOG000000348552 retrocopies
Loxodonta africana ENSLAFG000000049021 retrocopy
Macaca mulatta ENSMMUG000000194711 retrocopy
Monodelphis domestica ENSMODG000000144842 retrocopies
Nomascus leucogenys ENSNLEG000000075182 retrocopies
Oryctolagus cuniculus ENSOCUG000000005301 retrocopy
Otolemur garnettii ENSOGAG000000076682 retrocopies
Pongo abelii ENSPPYG000000126832 retrocopies
Pan troglodytes ENSPTRG000000116242 retrocopies
Pteropus vampyrus ENSPVAG000000036601 retrocopy
Rattus norvegicus ENSRNOG000000089501 retrocopy
Tarsius syrichta ENSTSYG000000041381 retrocopy
Tursiops truncatus ENSTTRG000000059422 retrocopies



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