RetrogeneDB ID:

retro_cpor_7

Retrocopy
location
Organism:Guinea Pig (Cavia porcellus)
Coordinates:scaffold_4:57684097..57685867(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCPOG00000023997
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:PPP2R1A
Ensembl ID:ENSCPOG00000008583
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cpor_7
ATGTCTGTGGCTAACGGTGACAACTCCCTCTACCCCATTGCCATGCTCTTAGATGAACTGCGCAACGAGGATGTTCAACT
ACGCCTGAACAGCATCAAGAAACTATCCATTATCGCCTTGGCCCTCGGGGCGGAAAGGACCCGAAGCGAGCTCCTGCCTT
TCCTAACAGACACCATTTACGATGAGGACGAGGTCCTCGTGGCCTTGGCGGAACAGCTGGGGACCTTCACCACGCTGGTG
GGAGGTCCGGAGTATGTACACTGCCTGCTGCCACCCCTGGAGTCCTTAGCCACAGTGGAGGAGACGGTGGTGCGCGACAA
GGCGGTGGAAGCCTTGCGAGTCATCTCCAAGGACCACTCGCCCTCAGACCTAGAGACCCATTTCGTGCCGTTGCTGAAAC
GGTTGGCAGGTGGCGACTGGTTCACTTCCCGCACCTCTGCCTGCGGCCTCTTCTCCGTGTGCTACCCTCGTGTGTCCACT
GCGGTGAAGGCAGAGCTGCGACAGTACTTCCGGAGCCTGTGTTCAGATGACACTCCAATGGTGCGGCGGGCTGCGGCCTC
CAAACTGGGGGAGTTTGCCCAGGTGCTGGAGCTGAATGACGTCAAGCAGGAGACCATCCCCATGTTCTGCAGCCTGGCCT
CTGACGAGCAGGACTCTGTAAGGCTCCTGGCAGTGAAGGCTTGTGTGCATATCGCCCAGCTCCTGCCGAAGCAAGAGGTG
GAGGCCTTGGTGATGCCTACCCTGAGCCAGGCTGCCGAGGACAAGTCCTGGCGCGTCCGCTACATGGTGGCTGAGAAATT
TACAGAGCTCCAAAAAGCAGTTGGACCTGATATCACCAAGACAGACCTGGTTCCTATCTTCCAGAACCTGATGAATGACT
GTGAGGCTGAAGTGAGGGCCGCAGCCTCCCAAAACGTCAAAGAGTTTTGCGAAAATCTCTCAGCTGACTGTAGGGAGAAT
GTGATCATGACCCACATCCTGCCCTGTGTGAAAGAACTGGCATCAGACACTAACCACCTTGTGAAGTCAGCTCTGGCCTC
AGTCATTATGGGCTTGTCCCCTGTCTTGGGCAAAGACAACACCATTGAGCACCTGTTGCCCCTCTTTCTGACTCAACTGA
AGGACGAGTGCCCTGAGGTGCGACTCAACATCATCTCCAACTTGGACTGTGTAAACCAGGTGATTGGCGTGCGACAGCTG
TCTCAGTCCCTGCTGCCAGCCATTGTGGAACTGGCTGAAGATGCCAAGTGGCGAGTGCGGCTGGCCATTATTGAGTACAT
CCCCCTCCTAGCTGGACAGCTAGGAGTGGAATTCTTCGATGAGAAACTCAATTCGTTGTGCATGGCCTGTCTCATGGATC
ATGTCTATGCCATTCGTGAGGCAGCCACCTGCAACCTGAAGAAGTTGGTGGAGAAGTTTGGGAAGGAGTGGGCCCGTGCT
GCCATCATCCCAAAGGTCTTGGCCATGTCTGGTGACCCCAACTACCTATACCGCATGACTACACTCTTCTGCATCAATGT
CCTGTCTGAAGTCTGTGGGCAAGATATTACCACCAAACAAATGCTGCCCACAGTGCTGCAAATGGCTGGGGATCCGGTTG
CCAACATCCGCTTCAATGTGGCTAAGTCCCTACAGAAGATAGGACCCATTCTGGATACCAGTACCCTCCAGACCAAAGTC
AAGCCCATCCTGGAGAAGCTGACCCAGGACCAGGATGTGGATGTTAAGTATTTTTCCCAGGAGGCTCTTACTGTTCTCTC
TTCTACCTGA

ORF - retro_cpor_7 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.84 %
Parental protein coverage: 99.64 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalLRLNSIKKLSTIALALGVERTRSELLPFLTDTIYDEDEVLLALAEQLGTFTTLVGGPEYVHCLLPPLESL
LRLNSIKKLS.IALALG.ERTRSELLPFLTDTIYDEDEVL.ALAEQLGTFTTLVGGPEYVHCLLPPLESL
RetrocopyLRLNSIKKLSIIALALGAERTRSELLPFLTDTIYDEDEVLVALAEQLGTFTTLVGGPEYVHCLLPPLESL
ParentalATVEETVVRDKAVESLRAISHEHSPSDLEAHFVPLVKRLAGGDWFTSRTSACGLFSVCYPRVSSAVKAEL
ATVEETVVRDKAVE.LR.IS..HSPSDLE.HFVPL.KRLAGGDWFTSRTSACGLFSVCYPRVS.AVKAEL
RetrocopyATVEETVVRDKAVEALRVISKDHSPSDLETHFVPLLKRLAGGDWFTSRTSACGLFSVCYPRVSTAVKAEL
ParentalRQYFRNLCSDDTPMVRRAEA-KLGEFAKVLELDNVKSEIIPMFSNLASDEQDSVRLLAVEACVNIAQLLP
RQYFR.LCSDDTPMVRRA.A.KLGEFA.VLEL..VK.E.IPMF..LASDEQDSVRLLAV.ACV.IAQLLP
RetrocopyRQYFRSLCSDDTPMVRRAAASKLGEFAQVLELNDVKQETIPMFCSLASDEQDSVRLLAVKACVHIAQLLP
ParentalQEDLEALVMPTLRQAAEDKSWRVRYMVADKFTELQKAVGPEITKTDLVPAFQNLMKDCEAEVRAAASHKV
....EALVMPTL.QAAEDKSWRVRYMVA.KFTELQKAVGP.ITKTDLVP.FQNLM.DCEAEVRAAAS..V
RetrocopyKQEVEALVMPTLSQAAEDKSWRVRYMVAEKFTELQKAVGPDITKTDLVPIFQNLMNDCEAEVRAAASQNV
ParentalKEFCENLSADCRENVIMTQILPCIKELVSDANQHVKSALASVIMGLSPILGKDNTIEHLLPLFLAQLKDE
KEFCENLSADCRENVIMT.ILPC.KEL.SD.N..VKSALASVIMGLSP.LGKDNTIEHLLPLFL.QLKDE
RetrocopyKEFCENLSADCRENVIMTHILPCVKELASDTNHLVKSALASVIMGLSPVLGKDNTIEHLLPLFLTQLKDE
ParentalCPEVRLNIISNLDCVNEVIGIRQLSQSLLPAIVELAEDAKWRVRLAIIEYMPLLAGQLGVEFFDEKLNSL
CPEVRLNIISNLDCVN.VIG.RQLSQSLLPAIVELAEDAKWRVRLAIIEY.PLLAGQLGVEFFDEKLNSL
RetrocopyCPEVRLNIISNLDCVNQVIGVRQLSQSLLPAIVELAEDAKWRVRLAIIEYIPLLAGQLGVEFFDEKLNSL
ParentalCMAWLVDHVYAIREAATSNLKKLVEKFGKEWAHATIIPKVLAMSGDPNYLHRMTTLFCINVLSEVCGQDI
CMA.L.DHVYAIREAAT.NLKKLVEKFGKEWA.A.IIPKVLAMSGDPNYL.RMTTLFCINVLSEVCGQDI
RetrocopyCMACLMDHVYAIREAATCNLKKLVEKFGKEWARAAIIPKVLAMSGDPNYLYRMTTLFCINVLSEVCGQDI
ParentalTTKHMLPTVLRMAGDPVANVRFNVAKSLQKIGPILDNSTLQSEVKPILEKLTQDQDVDVKYFAQEALTVL
TTK.MLPTVL.MAGDPVAN.RFNVAKSLQKIGPILD.STLQ..VKPILEKLTQDQDVDVKYF.QEALTVL
RetrocopyTTKQMLPTVLQMAGDPVANIRFNVAKSLQKIGPILDTSTLQTKVKPILEKLTQDQDVDVKYFSQEALTVL
ParentalS
S
RetrocopyS

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

(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 .06 RPM 266 .47 RPM
SRP017611_kidney 0 .00 RPM 119 .24 RPM
SRP017611_liver 0 .00 RPM 50 .40 RPM
SRP040447_lung 0 .00 RPM 148 .63 RPM
SRP040447_skeletal_muscle 0 .00 RPM 141 .14 RPM

ChIP-Seq - click to see more details

Cavia porcellus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_cpor_7 retrocopy.

TSS - click to see more details

Cavia porcellus was not studied using FANTOM5 data.

Lab - click to see more details

retro_cpor_7 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 2 parental genes, and 3 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000198512 retrocopies
retro_btau_1778, retro_btau_1779,
Cavia porcellus ENSCPOG00000008583 1 retrocopy
retro_cpor_7 ,


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