RetrogeneDB ID:

retro_cfam_71

Retrocopy
location
Organism:Dog (Canis familiaris)
Coordinates:22:2154943..2155507(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCAFG00000010362
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCAFG00000019677
Aliases:None
Description:Nucleoside diphosphate kinase [Source:UniProtKB/TrEMBL;Acc:F1PEZ2]


Retrocopy-Parental alignment summary:






>retro_cfam_71
ATGGGTGGCGTCTTGGGGCGCGCCTCGCTGCCGGGGCTGCTGAGTGGCCCGTGGGCCCCCGGACCGAGCCTGCTCGCGCA
CCCCAACTCGGGAGGGTCCTCCTGGACTCGAGAGCGGACCCTGGTTGCAGTGAAGCCGGATGGGGTGCAGCGGCGGCTTG
TGGGGGACGTGATCCAGCGCTTTGAGAGGAGGGGCTTCAAGCTGGTGGGGATGAAGATGCTGCAGGCGCCAGAGAGAGTC
CTTGCTGAGCACCACCATGACCTGCAGAGGAAGCCCTTCTACCCACCGCTCATCAGCTACATGACCTCCGGCCCCGTGGT
GGCCATGGTCTGGGAAGGCCCCAGTGTGGTGTGCTCCTCGAGGACCATGATAGGACACACCGACTCAGCTGAGGCCACCC
CCGGCACCATCAGGGGGGACTTCAGCATCCACATCAGCAGGAACATCATTCACGCCAGCGACTCCGTGGAGGGGGCCCGG
AGGGAGATCCAGCTATGGTTTCAGAGCAGTGAGCTGGTGGACTGGGCAGACAAAAACCACGAGAGCAGCATCTACGCAGC
CTGA

ORF - retro_cfam_71 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.25 %
Parental protein coverage: 94.9 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalGRRLGARRAAGLMRGPRAPGPCLLARSNSGGSSWTRERTLVAVKPDGVQRRLVGDVIQRFERRGFKLVGM
G..LG.....GL..GP.APGP.LLA..NSGGSSWTRERTLVAVKPDGVQRRLVGDVIQRFERRGFKLVGM
RetrocopyGGVLGRASLPGLLSGPWAPGPSLLAHPNSGGSSWTRERTLVAVKPDGVQRRLVGDVIQRFERRGFKLVGM
ParentalKMLQAPERVLAEHYHDLQRKPFYPSLISYMTSGPVVAMVWEGPNVVCSSRTMIGHTDSAEAAPGTIRGDF
KMLQAPERVLAEH.HDLQRKPFYP.LISYMTSGPVVAMVWEGP.VVCSSRTMIGHTDSAEA.PGTIRGDF
RetrocopyKMLQAPERVLAEHHHDLQRKPFYPPLISYMTSGPVVAMVWEGPSVVCSSRTMIGHTDSAEATPGTIRGDF
ParentalSVHISRNIIHASDSVEGARREIQLWFQSSELVDWADENHHSSIYAA
S.HISRNIIHASDSVEGARREIQLWFQSSELVDWAD.NH.SSIYAA
RetrocopySIHISRNIIHASDSVEGARREIQLWFQSSELVDWADKNHESSIYAA

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 1 .76 RPM 14 .53 RPM
SRP017611_brain 0 .87 RPM 8 .73 RPM
SRP017611_kidney 0 .13 RPM 60 .69 RPM
SRP017611_liver 0 .15 RPM 21 .32 RPM
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_71 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_71 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cfam_71 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 22 parental genes, and 43 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000070773 retrocopies
Canis familiaris ENSCAFG00000019677 4 retrocopies
Canis familiaris ENSCAFG000000236287 retrocopies
Cavia porcellus ENSCPOG000000064961 retrocopy
Echinops telfairi ENSETEG000000148751 retrocopy
Felis catus ENSFCAG000000083003 retrocopies
Homo sapiens ENSG000001032021 retrocopy
Gorilla gorilla ENSGGOG000000045121 retrocopy
Macropus eugenii ENSMEUG000000054555 retrocopies
Myotis lucifugus ENSMLUG000000100611 retrocopy
Macaca mulatta ENSMMUG000000006121 retrocopy
Mustela putorius furoENSMPUG000000160173 retrocopies
Mus musculus ENSMUSG000000241771 retrocopy
Nomascus leucogenys ENSNLEG000000080681 retrocopy
Otolemur garnettii ENSOGAG000000258081 retrocopy
Pongo abelii ENSPPYG000000069081 retrocopy
Pan troglodytes ENSPTRG000000075411 retrocopy
Rattus norvegicus ENSRNOG000000491521 retrocopy
Sus scrofa ENSSSCG000000079862 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000047981 retrocopy
Tursiops truncatus ENSTTRG000000091572 retrocopies
Vicugna pacos ENSVPAG000000103161 retrocopy



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