RetrogeneDB ID:

retro_cpor_11

Retrocopy
location
Organism:Guinea Pig (Cavia porcellus)
Coordinates:scaffold_5:3432237..3433899(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCPOG00000007741
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:GYK
Ensembl ID:ENSCPOG00000003261
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cpor_11
ATGGCTGCTGAGAAGAAGGCAGCGGTGGGATCCTTAGTTGGGACGGTAGTACAGAGCACCAGCACCACTAGTTTTCTGGT
TTTCAAGGCAAAAACAGCAGAACTACTCAGTCAGCATCAAGTGGAATTAACCCAAGAGTTCCCAAAAGACGGATGGGTAG
AACAGGACCCAAAGGAAATTCTACAGTCTGTCTATGAGTGTATAGCCAGAACATGTGAGAAACTCGACCAAGAGAATATT
GATATATCCAACATAAAAGCTATAGGTATCAGCAACCAGAGGGAAACCACCGTCATCTGGGACAAGTTAACTGGAGAGCC
ACTTTACAATGCGGTGGTTTGGCTTGACCTTAGAACCCAGTCTACCGTTGAAATTCTTAGTAAAAAAATTCCTGGAAATA
ATAACTTCGTCAAGTCCAAGACTGGCCTTCCGCTTAGCACCTACTTCAGTGCCGTGAAACTTCGTTGGATGTTTGACAAT
GTAAGACAAATCCAGAAAGCTGTGGAAGAAGGTCGAGCTCTGTTTGGTACAATTGATTCTTGGCTTATCTGGAGTATGAC
AGGGGGAGTCAATGGAGGTGTCCATGGGACAGATGTAACAAATGCAAGTAGGACAATGCTTTTCAACATCCATTCTTTGG
AATGGGATAAAGAGCTGTGTAAGTTTTTTGAAATTCCCATGAACATACTTCCAAATGTCTGGAGTTGTTCTGAGATCTAC
GGCCTTATGAAAGGTGGCATTTTGGAAGGTATCCCAATATCTGGGTGTTTGGGAGATCAGTCTGCTGCATTAGTAGGACA
AATGTGCTTCCAGGAAGGACAAGCCAAAAACACATACGGGACAGGTTGTTTCTTACTATGCAATACAGGTCAAAAGTGTA
TATTTTCTGAACATGGTCTTCTGACCACAATAGCTTACAAACTAGGCAAAGATAAACCAGTGTATTATGCATTGGAAGGT
TCTGTTGCTATAGCTGGTGCTGCTGTTCGATGGCTGAAAGACAACCTTGGTATTATAAAGACCTCAGAAGAAATTGAAAC
CCTTGCTAAAGAAGCAGGTACTTCTTTTGGCTGCTACTTTGTCCCAGCCTTTTCAGGGTTGTATGCACCTTATTGGGAGC
CCAGTGCAAGAGGAATAATCTGTGGTCTCACTCAGTTTACCAATAAGTGTCATATTGCTTATGCTGCATTAGAAGCTATT
TGTTTCCAAACTCGAGAGATTTTGGATGCCATGAACCATGATTGTGGAATTCCACTCCATCATTTACAGGTAGATGGGAA
CATGACTAAAAACAAAATTCTTATGCAACTACAAGCAGATATTCTGCATATTCCAGTAATAAAGTCTTCTATGTCTAATA
TAATAGCACTGGGAGCCGCTATGGCTGCAGGGGCTGCAGAAGGAGTAGATGTTTGGAGTTTAAAATCCAAGAATTTGTCA
GCAGTCACAGTGGAGCAAATTGAACCACAGATCCAGGCCACAGAAAGTGAAAGCCGTTATTCTACATGGAAAAAAGCTGT
GAAGAAGACGATGGGTTGGGTTTCACCTCAGACTGCTGAAAATGGTGAATTTACTACCTTCTCTAGTATGCCTTTGGGCT
TTTTTATAGTGAGTAGCATGATAATATTCATTGGCGCAAGATACATCTCAGGCATACCCTAA

ORF - retro_cpor_11 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.79 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMASTKKADLGPLVGAVDQGTSSTRFLVFNSKTAELLSHHQVEIKQEFPREGWVEQDPKEILQSVYECIEK
MA..KKA..G.LVG.V.Q.TS.T.FLVF..KTAELLS.HQVE..QEFP..GWVEQDPKEILQSVYECI..
RetrocopyMAAEKKAAVGSLVGTVVQSTSTTSFLVFKAKTAELLSQHQVELTQEFPKDGWVEQDPKEILQSVYECIAR
ParentalTCEKLGQLNIDISNIKAIGVSNQRETTVVWDKLTGEPLYNAVVWLDLRTQSTVENLSKRIPGNNNFVKSK
TCEKL.Q.NIDISNIKAIG.SNQRETTV.WDKLTGEPLYNAVVWLDLRTQSTVE.LSK.IPGNNNFVKSK
RetrocopyTCEKLDQENIDISNIKAIGISNQRETTVIWDKLTGEPLYNAVVWLDLRTQSTVEILSKKIPGNNNFVKSK
ParentalTGLPLSTYFSAVKLRWLLDNVRKVQKAVEENRALFGTIDSWLIWSLTGGVNGGVHCTDVTNASRTMLFNI
TGLPLSTYFSAVKLRW..DNVR..QKAVEE.RALFGTIDSWLIWS.TGGVNGGVH.TDVTNASRTMLFNI
RetrocopyTGLPLSTYFSAVKLRWMFDNVRQIQKAVEEGRALFGTIDSWLIWSMTGGVNGGVHGTDVTNASRTMLFNI
ParentalHSLEWDKELCEFFGIPMEILPNVRSSSEIYGLMKAGALEGVPISGCLGDQSAALVGQMCFQDGQAKNTYG
HSLEWDKELC.FF.IPM.ILPNV.S.SEIYGLMK.G.LEG.PISGCLGDQSAALVGQMCFQ.GQAKNTYG
RetrocopyHSLEWDKELCKFFEIPMNILPNVWSCSEIYGLMKGGILEGIPISGCLGDQSAALVGQMCFQEGQAKNTYG
ParentalTGCFLLCNTGHKCVFSEHGLLTTVAYKLGRDKPVYYALEGSVAIAGAVIRWLRDNLGIIKTSEEIEKLAK
TGCFLLCNTG.KC.FSEHGLLTT.AYKLG.DKPVYYALEGSVAIAGA..RWL.DNLGIIKTSEEIE.LAK
RetrocopyTGCFLLCNTGQKCIFSEHGLLTTIAYKLGKDKPVYYALEGSVAIAGAAVRWLKDNLGIIKTSEEIETLAK
ParentalEVGTSYGCYFVPAFSGLYAPYWETKCIGIIICGLTQFTNKCHIAFAALEAVCFQTREILDAMNRDCGIPL
E.GTS.GCYFVPAFSGLYAPYWE....G.IICGLTQFTNKCHIA.AALEA.CFQTREILDAMN.DCGIPL
RetrocopyEAGTSFGCYFVPAFSGLYAPYWEPSARG-IICGLTQFTNKCHIAYAALEAICFQTREILDAMNHDCGIPL
ParentalSHLQVDGGMTSNKILMQLQADILYIPVVKPSMPETTALGAAMAAGAAEGVGVWSLEPEDLSAVTMERFEP
.HLQVDG.MT.NKILMQLQADIL.IPV.K.SM....ALGAAMAAGAAEGV.VWSL....LSAVT.E..EP
RetrocopyHHLQVDGNMTKNKILMQLQADILHIPVIKSSMSNIIALGAAMAAGAAEGVDVWSLKSKNLSAVTVEQIEP
ParentalQINAEESEIRYSTWKKAVMKSMGWVTTQSPESGDPSIFCSLPLGFFIVSSMVMFIGARYISG
QI.A.ESE.RYSTWKKAV.K.MGWV..Q..E.G....F.S.PLGFFIVSSM..FIGARYISG
RetrocopyQIQATESESRYSTWKKAVKKTMGWVSPQTAENGEFTTFSSMPLGFFIVSSMIIFIGARYISG

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
SRP017611_brain 0 .00 RPM 10 .53 RPM
SRP017611_kidney 0 .00 RPM 27 .64 RPM
SRP017611_liver 0 .00 RPM 57 .80 RPM
SRP040447_lung 0 .00 RPM 42 .02 RPM
SRP040447_skeletal_muscle 0 .00 RPM 4 .64 RPM
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_11 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_11 was not experimentally validated.

Retrocopy orthology:
Cavia porcellus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 21 parental genes, and 34 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000091611 retrocopy
Canis familiaris ENSCAFG000000137131 retrocopy
Callithrix jacchus ENSCJAG000000076333 retrocopies
Cavia porcellus ENSCPOG00000003261 2 retrocopies
retro_cpor_11 , retro_cpor_20,
Equus caballus ENSECAG000000035991 retrocopy
Echinops telfairi ENSETEG000000082792 retrocopies
Felis catus ENSFCAG000000042641 retrocopy
Homo sapiens ENSG000001988144 retrocopies
Loxodonta africana ENSLAFG000000076321 retrocopy
Myotis lucifugus ENSMLUG000000010462 retrocopies
Monodelphis domestica ENSMODG000000024171 retrocopy
Mus musculus ENSMUSG000000250592 retrocopies
Nomascus leucogenys ENSNLEG000000101022 retrocopies
Oryctolagus cuniculus ENSOCUG000000130232 retrocopies
Otolemur garnettii ENSOGAG000000169521 retrocopy
Pteropus vampyrus ENSPVAG000000124601 retrocopy
Rattus norvegicus ENSRNOG000000341162 retrocopies
Sarcophilus harrisii ENSSHAG000000064701 retrocopy
Sus scrofa ENSSSCG000000122022 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000087321 retrocopy
Tarsius syrichta ENSTSYG000000082491 retrocopy



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