RetrogeneDB ID:

retro_cfam_164

Retrocopy
location
Organism:Dog (Canis familiaris)
Coordinates:12:24224621..24225056(-)
Located in intron of:ENSCAFG00000002447
Retrocopy
information
Ensembl ID:ENSCAFG00000030049
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:CALM3
Ensembl ID:ENSCAFG00000029151
Aliases:None
Description:calmodulin 3 (phosphorylase kinase, delta) [Source:HGNC Symbol;Acc:1449]


Retrocopy-Parental alignment summary:






>retro_cfam_164
ATTGAGGAGCAGACTGCAGAATTCAAAGAAGCTTTTTCACTATTTGACAAGGATGGTGATGGAACTATAACAACAAAGGA
ATTGGGAACTGTAATGAGGTTTCTTGGGCAGAATCCCACAGAAGCAGAGTTACAGGACATGATTAATGGAGTAGATGCTG
ATGGTAATGGCACAATTGACTTCCCGGAATTTCTGACAATGATGGCAAGAAAAATGAAAGACACAGACAGTGAAGAAGAA
ATTAGAGAAGCATTCCATGTGTTTGATAAGGATGGCAATGGCTATATTAGTGCAGCAGAGCTTTGCCATGTGATGACAAA
CCTGGGAGAGAAGTTAACAGATGAAGAGGTTGATGAAATGATCAGGGAAGCAGATATTCATGGTGATGGTCAAGTAAACT
ATGAAGAGTTTGTACAAATGATGACAGCAAAGTGA

ORF - retro_cfam_164 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 95.8 %
Parental protein coverage: 95.97 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARK
EEQ.AEFKEAFSLFDKDGDGTITTKELGTVMR.LGQNPTEAELQDMIN.VDADGNGTIDFPEFLTMMARK
RetrocopyEEQTAEFKEAFSLFDKDGDGTITTKELGTVMRFLGQNPTEAELQDMINGVDADGNGTIDFPEFLTMMARK
ParentalMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMM
MKDTDSEEEIREAF.VFDKDGNGYISAAEL.HVMTNLGEKLTDEEVDEMIREADI.GDGQVNYEEFVQMM
RetrocopyMKDTDSEEEIREAFHVFDKDGNGYISAAELCHVMTNLGEKLTDEEVDEMIREADIHGDGQVNYEEFVQMM
ParentalTAK
TAK
RetrocopyTAK

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 .84 RPM 829 .94 RPM
SRP017611_brain 2 .14 RPM 1546 .88 RPM
SRP017611_kidney 0 .99 RPM 307 .27 RPM
SRP017611_liver 0 .29 RPM 66 .71 RPM
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_164 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_164 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cfam_164 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 23 parental genes, and 51 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000157121 retrocopy
Ailuropoda melanoleuca ENSAMEG000000085653 retrocopies
Bos taurus ENSBTAG000000145832 retrocopies
Canis familiaris ENSCAFG00000029151 4 retrocopies
Cavia porcellus ENSCPOG000000016121 retrocopy
Erinaceus europaeus ENSEEUG000000001401 retrocopy
Echinops telfairi ENSETEG000000093775 retrocopies
Felis catus ENSFCAG000000049951 retrocopy
Homo sapiens ENSG000001600143 retrocopies
Gorilla gorilla ENSGGOG000000002124 retrocopies
Loxodonta africana ENSLAFG000000011555 retrocopies
Microcebus murinus ENSMICG000000131803 retrocopies
Myotis lucifugus ENSMLUG000000105281 retrocopy
Monodelphis domestica ENSMODG000000092221 retrocopy
Mustela putorius furoENSMPUG000000052611 retrocopy
Mus musculus ENSMUSG000000193703 retrocopies
Nomascus leucogenys ENSNLEG000000027522 retrocopies
Otolemur garnettii ENSOGAG000000147642 retrocopies
Procavia capensis ENSPCAG000000057511 retrocopy
Petromyzon marinus ENSPMAG000000033231 retrocopy
Pongo abelii ENSPPYG000000101544 retrocopies
Pelodiscus sinensis ENSPSIG000000131731 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000143521 retrocopy



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