RetrogeneDB ID:

retro_cfam_1034

Retrocopy
location
Organism:Dog (Canis familiaris)
Coordinates:21:26884426..26884659(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SRP9
Ensembl ID:ENSCAFG00000016162
Aliases:None
Description:signal recognition particle 9kDa [Source:HGNC Symbol;Acc:11304]


Retrocopy-Parental alignment summary:






>retro_cfam_1034
ATGCCGCAGTACCAGACCTGGGAGGAGTTCAGCTGCTCGGCCAAGAACTTCTACCTTCCCGATCCTATGAAGGCACGTGT
GGTTCTCAAATATAGGCCTTCTGAATGGAAGTTTCTGTATTAAAGTAACAGATGATTTAGTTTGTTTTGGTGTATAGAAC
AGACCAAGCCCAAGATGTAAAGAAGATTGAGAAATTCCACAGTCAACTAATGCGACGCGTGGTAGCCAAGGAA

ORF - retro_cfam_1034 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.54 %
Parental protein coverage: 89.53 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMPQYQTWEEFSRAAEKLYLADPMKARVVLKYRHSD-GSLCIKVTDDLVC-LVYRTDQAQDVKKIEKFHSQ
MPQYQTWEEFS..A...YL.DPMKARVVLKYR.S..GS.CIKVTDDLVC.LVYRTDQAQDVKKIEKFHSQ
RetrocopyMPQYQTWEEFSCSAKNFYLPDPMKARVVLKYRPSE>GSFCIKVTDDLVC>LVYRTDQAQDVKKIEKFHSQ
ParentalLMRLMVAKE
LMR..VAKE
RetrocopyLMRRVVAKE

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 23 .48 RPM
SRP017611_brain 0 .00 RPM 16 .83 RPM
SRP017611_kidney 0 .00 RPM 19 .02 RPM
SRP017611_liver 0 .00 RPM 3 .63 RPM
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_1034 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_1034 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cfam_1034 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 5 parental genes, and 10 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG00000016162 2 retrocopies
retro_cfam_1034 , retro_cfam_1527,
Dasypus novemcinctus ENSDNOG000000134123 retrocopies
Echinops telfairi ENSETEG000000122911 retrocopy
Loxodonta africana ENSLAFG000000040813 retrocopies
Otolemur garnettii ENSOGAG000000017521 retrocopy



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