RetrogeneDB ID:

retro_cfam_92

Retrocopy
location
Organism:Dog (Canis familiaris)
Coordinates:29:33555334..33555832(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCAFG00000008935
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS10
Ensembl ID:ENSCAFG00000001214
Aliases:None
Description:Canis lupus familiaris ribosomal protein S10 (RPS10), mRNA. [Source:RefSeq mRNA;Acc:NM_001252045]


Retrocopy-Parental alignment summary:






>retro_cfam_92
ATGTTGATGCCCAAGAAGAACCGAATCGCCATTTATGAACTCCTTTTCAAGGAGGGGGTGATGGTGGCAAAGAAGGACGT
CCACATGCCCAAACACCCTGAACTGGCCGACAAGAATGTGCCCAACCTTCACGTCATGAAGGCCATGCAGTCTCTCAAAT
CCCGAGGCTACGTAAAGGAACAGTTTGCTTGGAGACATTTCTACTGCTACCTTACCAACGAGGGTATCCAGTATCTCCGT
GATTACCTCCACCTACCCCCCGAGATCGTGCCTGCCACTCTGCGCCGCAGCAGACCGGAGACCGGCAGGCCACGGCCCAA
AGGTCTGGAGGGAGAGCGACCTGCAAGACTGACACGAGGGGAAGCTGACAGAGACACCTACAGACGAAGCGCTGTGCCCC
CTGGTGCCGACAAGAAAGCTGAGGCTGGGGCAGGGTCAGCAACTGAGTTCCAGTTTAGAGGCGGATTTGGTCGTGGACGT
GGTCAGCCACCTCAGTAA

ORF - retro_cfam_92 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 99.39 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMLMPKKNRIAIYELLFKEGVMVAKKDVHMPKHPELADKNVPNLHVMKAMQSLKSRGYVKEQFAWRHFYWY
MLMPKKNRIAIYELLFKEGVMVAKKDVHMPKHPELADKNVPNLHVMKAMQSLKSRGYVKEQFAWRHFY.Y
RetrocopyMLMPKKNRIAIYELLFKEGVMVAKKDVHMPKHPELADKNVPNLHVMKAMQSLKSRGYVKEQFAWRHFYCY
ParentalLTNEGIQYLRDYLHLPPEIVPATLRRSRPETGRPRPKGLEGERPARLTRGEADRDTYRRSAVPPGADKKA
LTNEGIQYLRDYLHLPPEIVPATLRRSRPETGRPRPKGLEGERPARLTRGEADRDTYRRSAVPPGADKKA
RetrocopyLTNEGIQYLRDYLHLPPEIVPATLRRSRPETGRPRPKGLEGERPARLTRGEADRDTYRRSAVPPGADKKA
ParentalEAGAGSATEFQFRGGFGRGRGQPPQ
EAGAGSATEFQFRGGFGRGRGQPPQ
RetrocopyEAGAGSATEFQFRGGFGRGRGQPPQ

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 .55 RPM 176 .65 RPM
SRP017611_brain 0 .48 RPM 49 .14 RPM
SRP017611_kidney 2 .51 RPM 282 .51 RPM
SRP017611_liver 0 .36 RPM 59 .68 RPM
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_92 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_92 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cfam_92 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 23 parental genes, and 126 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000010474 retrocopies
Canis familiaris ENSCAFG00000001214 2 retrocopies
retro_cfam_1, retro_cfam_92 ,
Callithrix jacchus ENSCJAG000000152504 retrocopies
Cavia porcellus ENSCPOG000000086132 retrocopies
Dasypus novemcinctus ENSDNOG000000116702 retrocopies
Dipodomys ordii ENSDORG000000120606 retrocopies
Felis catus ENSFCAG000000153553 retrocopies
Latimeria chalumnae ENSLACG000000172191 retrocopy
Loxodonta africana ENSLAFG000000085391 retrocopy
Macaca mulatta ENSMMUG000000002672 retrocopies
Monodelphis domestica ENSMODG000000139292 retrocopies
Mustela putorius furoENSMPUG000000031173 retrocopies
Mus musculus ENSMUSG000000521469 retrocopies
Nomascus leucogenys ENSNLEG0000000833624 retrocopies
Otolemur garnettii ENSOGAG000000013655 retrocopies
Ochotona princeps ENSOPRG000000026932 retrocopies
Procavia capensis ENSPCAG000000127951 retrocopy
Pongo abelii ENSPPYG000000165162 retrocopies
Pan troglodytes ENSPTRG0000001806326 retrocopies
Rattus norvegicus ENSRNOG000000004904 retrocopies
Sarcophilus harrisii ENSSHAG000000007313 retrocopies
Tupaia belangeri ENSTBEG0000000149216 retrocopies
Tursiops truncatus ENSTTRG000000150642 retrocopies



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