RetrogeneDB ID:

retro_mmul_212

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:11:65373611..65374616(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMMUG00000031762
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:LDHB
Ensembl ID:ENSMMUG00000002679
Aliases:None
Description:L-lactate dehydrogenase [Source:UniProtKB/TrEMBL;Acc:F7HQ10]


Retrocopy-Parental alignment summary:






>retro_mmul_212
ATGGCAACTCTTAAGGAAAAACTCATTGCACCAGTTGCGGAAGAAGAGGCAACAGTCCCAAACAATAAGATCACTGTAGT
GGGTGTTGGACAAGTTGGTATGGCGTGTGCTATCAGCATTCTGGGAAAGTCTCTGGCTGATGAACTTGCTCTTGTGGATG
TTTTGGAAGATAAGCTTAAAGGAGAAATGATGGATCTGCAGCATGGGAGCTTATTTCTTCAGACGCCTAAAATTGTGGCA
GATAAAGATTATTCTGTGACTGCCAATTCCAAGATTGTAGTGGTAACTGCAGGAGTCCGTCAGCAAGAAGGGGACAGTCG
GCTCAATCTGGTGCAGAGAAATGTTAATGTCTTCAAATTCATTATTCCTCAGATCGTCAAGTACAGTCCTGATTGCATCA
TAATTGTGGTTTCCAACCCAGTGGACATTCTTACATATGTTACCTGGAAACTAAGTGGATTACCCAAACACCGCATGATT
GGAAGTGGATGTAATCTGGATTCTGCTAGATTTCGCTACCTTATGGCTGAAAAACTTGGCATTCATCCCAGCAGCTGCCA
TGGATGGATTTTGGGGGAACATGGCGACTCAAGTGTGGCTGTGTGGAGTGGCGTGAATGTGGCAGGTGTTTCTCTCCAAG
AATTGAATCCAGAAATGGGAACGGACAATGATAGTGAAAATTGGAAGGAAGTGCATAAGATGGTGGTTGAAAGTGCCTAT
GAAGTCATCAAGCTAAAAGGATATACCAACTGGGCTATTGGATTAAGTGTGGCTGATCTTATTGAATCCATGTTGAAAAA
TCTATCCAGGATTCATCCCGTGTCAACAATGGTAAAGGGGATGTATGGCATCGAGAATGAAGTCTTCCTGAGCCTTCCAT
GTATCCTCAATGCCCGAGGATTAACCAGCGTTATCAACCAGAAGCTAAAGGATGATGAAGTTGCTCAGCTCAAGAAAAGT
GCGGATACCCTGTGGGACATCCAGAAGGACCTAAAAGACCTGTGA

ORF - retro_mmul_212 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 99.4 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMATLKEKLIAPVAEEEATVPNNKITVVGVGQVGMACAISILGKSLADELALVDVLEDKLKGEMMDLQHGS
MATLKEKLIAPVAEEEATVPNNKITVVGVGQVGMACAISILGKSLADELALVDVLEDKLKGEMMDLQHGS
RetrocopyMATLKEKLIAPVAEEEATVPNNKITVVGVGQVGMACAISILGKSLADELALVDVLEDKLKGEMMDLQHGS
ParentalLFLQTPKIVADKDYSVTANSKIVVVTAGVRQQEGESRLNLVQRNVNVFKFIIPQIVKYSPDCIIIVVSNP
LFLQTPKIVADKDYSVTANSKIVVVTAGVRQQEG.SRLNLVQRNVNVFKFIIPQIVKYSPDCIIIVVSNP
RetrocopyLFLQTPKIVADKDYSVTANSKIVVVTAGVRQQEGDSRLNLVQRNVNVFKFIIPQIVKYSPDCIIIVVSNP
ParentalVDILTYVTWKLSGLPKHRVIGSGCNLDSARFRYLMAEKLGIHPSSCHGWILGEHGDSSVAVWSGVNVAGV
VDILTYVTWKLSGLPKHR.IGSGCNLDSARFRYLMAEKLGIHPSSCHGWILGEHGDSSVAVWSGVNVAGV
RetrocopyVDILTYVTWKLSGLPKHRMIGSGCNLDSARFRYLMAEKLGIHPSSCHGWILGEHGDSSVAVWSGVNVAGV
ParentalSLQELNPEMGTDNDSENWKEVHKMVVESAYEVIKLKGYTNWAIGLSVADLIESMLKNLSRIHPVSTMVKG
SLQELNPEMGTDNDSENWKEVHKMVVESAYEVIKLKGYTNWAIGLSVADLIESMLKNLSRIHPVSTMVKG
RetrocopySLQELNPEMGTDNDSENWKEVHKMVVESAYEVIKLKGYTNWAIGLSVADLIESMLKNLSRIHPVSTMVKG
ParentalMYGIENEVFLSLPCILNARGLTSVINQKLKDDEVAQLKKSADTLWDIQKDLKDL
MYGIENEVFLSLPCILNARGLTSVINQKLKDDEVAQLKKSADTLWDIQKDLKDL
RetrocopyMYGIENEVFLSLPCILNARGLTSVINQKLKDDEVAQLKKSADTLWDIQKDLKDL

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
SRP007412_brain 0 .22 RPM 35 .18 RPM
SRP007412_brain_prefrontal_cortex 13 .80 RPM 118 .60 RPM
SRP007412_cerebellum 0 .52 RPM 32 .22 RPM
SRP007412_heart 1 .06 RPM 85 .03 RPM
SRP007412_kidney 0 .23 RPM 54 .58 RPM
SRP007412_liver 0 .08 RPM 0 .51 RPM
SRP007412_testis 0 .11 RPM 3 .32 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_212 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_212 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_212 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 30 parental genes, and 82 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000161754 retrocopies
Bos taurus ENSBTAG000000196034 retrocopies
Canis familiaris ENSCAFG000000121959 retrocopies
Choloepus hoffmanni ENSCHOG000000076581 retrocopy
Cavia porcellus ENSCPOG000000071381 retrocopy
Dasypus novemcinctus ENSDNOG000000136204 retrocopies
Echinops telfairi ENSETEG000000199551 retrocopy
Felis catus ENSFCAG000000126391 retrocopy
Homo sapiens ENSG000001117161 retrocopy
Gorilla gorilla ENSGGOG000000157581 retrocopy
Loxodonta africana ENSLAFG000000009722 retrocopies
Macropus eugenii ENSMEUG000000048251 retrocopy
Microcebus murinus ENSMICG000000171832 retrocopies
Myotis lucifugus ENSMLUG000000121551 retrocopy
Macaca mulatta ENSMMUG00000002679 4 retrocopies
Macaca mulatta ENSMMUG000000146142 retrocopies
Macaca mulatta ENSMMUG000000310242 retrocopies
Monodelphis domestica ENSMODG000000177861 retrocopy
Mustela putorius furoENSMPUG000000001725 retrocopies
Mus musculus ENSMUSG000000302464 retrocopies
Oryctolagus cuniculus ENSOCUG000000220151 retrocopy
Otolemur garnettii ENSOGAG000000047639 retrocopies
Pongo abelii ENSPPYG000000043563 retrocopies
Pan troglodytes ENSPTRG000000047621 retrocopy
Pteropus vampyrus ENSPVAG000000024623 retrocopies
Rattus norvegicus ENSRNOG000000130003 retrocopies
Sorex araneus ENSSARG000000025651 retrocopy
Sus scrofa ENSSSCG000000005761 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000220582 retrocopies
Tarsius syrichta ENSTSYG000000137597 retrocopies



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