RetrogeneDB ID:

retro_ocun_167

Retrocopy
location
Organism:Rabbit (Oryctolagus cuniculus)
Coordinates:2:53829344..53831321(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOCUG00000012211
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSOCUG00000010515
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ocun_167
ATGAATAAGAAAGCAGGCTCCTTTTTCTGGAACTTCAAACAACTCAGTACTTTAATTCCAACAAGCAGAACCATGAGGCT
ATATTCTTTGGGATTTTGCAGACCAAAAATTGTTTGTGCAAACTGGAAACTAAGAAGCCTCTTAAATGACTTAGGTAATA
GAAAGCAATCATCTATTAGATATCTCTTTCAGGATGCATTTATTTTTAAATCAAGAGAAGATAATTGTCAAGCAAAAGGC
ATAAGCACTGTAAGGATCCCTACAGTTCATAGACTGCTTTGTCCCAGAAGAATATTCTTTGATGCAAAATATTCTGTTGT
CTGTGTTGATATACCTGATAATGGACTGAAGAAATTAAGCTTTCATCATGAGGCCTCCAGTGAAGATGTTCTCATCAAGG
AAAGAAAAGCAACCCCTCTGAGTTCCCGAAAACTGTCTGAGGAGTGTAATTCCCTGAGTGATGTGTTAGATACATTTTCA
AAAGCACCTACATTTCCTAGCAGTAACTATTTCTCAGCAATGTGGACAATTGCCAAAAGGATGTCCGATGATCAGAGGCG
CTTTGAAAAACAATTGATGTTTAATCACCCTGCCTTTAACCAGTTGTGTGAACAACTGTTGAGAGAAGCCAAGATCCTGT
ACTTTGACCACCTGCTGTTCAGCCTGCATGCCTTGGTGAAGCTCGGCGTCCCTCAGAACACCCTGCTGGTGCAGACCTTG
CTAAGGACCATCCAGGAACGTATAAATGAGTGTGATGAGAGATGTCTTTCGATTTTGTCAGCTGTTTTAGAGGCGCTGGA
ACCATGCAAAAATGAACATGCTCTTCGATCAGGATTGCGGATACTAGTTGATCAACATGTTTGGAAGATAAAAAGCATCT
TTACGTTACAAACTGTGATGAAATACATTGGACAGGATACACCAATTGCTCTGAAAAAGAAACTGGAGATGAAAGCCTTG
AAGGAATTAGACAGATTTTCTTTGTTGAATAGCCAGCATATGTTTGAGGTGCTAGCTGCCATGAATTACCGGCCTGTTGT
TCTCTTGAACGAGTGCAGTGCGAAGGTCATAGATAATATCCATGGTTGTCCTTTCAAAATATTGAACAACATATTGCGAT
CCTGCAAAGACCTCCGATACCGTAATTTAAAACTCTTTGAGGGAATAGCAGATTATGTACATACAACTTTTGACATCTGG
ACGTTGAAACAAGTACTTTTTCTCCTCATTTTATTTGAAAACCTTGGCTTTCGGCCTATTGGTTTAATGAACTTGTTGAT
GAAGAAAGTAGTAGAGGAACCTGGATCCTTAAACATGAAAAGCATTGTCTCTATTCTTCACGTGTATTCTTCTCTCAATC
ACAGCTGCCAATCTCAGGACAAAGAGTTCCTGGATGTTATGGCTGCTGCTCTGACTGGTTGTCTTCACCACATCTCTTCT
CAAAACCTACTGAACGCTGTGTATTCATTTTGCATGATGAATTATTTCCCTCTGGCTCCTGTTAATCAGCTTCTCCAAGA
TGACGTCATCAGTGAGCTGCTGGCATCAGATGATAGGGAGAAGAATGTTCACAGACTTCATATTCTGGATACTTGTCTGA
AACTTGATGATACTGCTTATCACAAGGCCTTAGACTTAGCCTTGCCACAGCCACCTTCGGTACCATCATGTCCAAATACA
AAGGTGGCGGAGGTGTTAAGTAGACTCCTGGGAGGTGAAGGATACTTCTCAAAAAATGTGCAGTTGCCACATAATTATCA
TATCGATTTTGAAATCAGAATGGATACTAAGAGGAGTCAAGTGCTTCCATTTTCTGATGCAGATATAACTTGTGCTACAA
ATATTCAAAGAGTAGCTGTGCTATGTGTTCCTAGATCTTCTTACTGTTTGTATTCAAGCCACCCCAGAGGGATCCTTGCT
ATGAAAATGCGGCATTTAAATCTAATGGGTTTTCATGTGATCTTGGTCAATAACTGA

ORF - retro_ocun_167 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 95.14 %
Parental protein coverage: 94.95 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMNKKAGSFFWNFKQLSTLIPTSRTMRLYSLGFCRPKIVCAKWKLRSLLNDLGNRKQSSIRYLFQDAFIFK
MNKKAGSFFWNFKQLSTLIPTSRTMRLYSLGFCRPKIVCA.WKLRSLLNDLGNRKQSSIRYLFQDAFIFK
RetrocopyMNKKAGSFFWNFKQLSTLIPTSRTMRLYSLGFCRPKIVCANWKLRSLLNDLGNRKQSSIRYLFQDAFIFK
ParentalSREDSCQAKGISTVRVPTVHRLLCPRRIFFDAKYSVVCVDIPDNGLKKLSFHHEASSEDVLIKERKATPL
SRED.CQAKGISTVR.PTVHRLLCPRRIFFDAKYSVVCVDIPDNGLKKLSFHHEASSEDVLIKERKATPL
RetrocopySREDNCQAKGISTVRIPTVHRLLCPRRIFFDAKYSVVCVDIPDNGLKKLSFHHEASSEDVLIKERKATPL
ParentalSSRKLSEECNSLSDVLDTFSKAPTFPSSNYFSAMWTIAKRMSDDQRRFEKQLMFNHPAFNQLCEQLLREA
SSRKLSEECNSLSDVLDTFSKAPTFPSSNYFSAMWTIAKRMSDDQRRFEKQLMFNHPAFNQLCEQLLREA
RetrocopySSRKLSEECNSLSDVLDTFSKAPTFPSSNYFSAMWTIAKRMSDDQRRFEKQLMFNHPAFNQLCEQLLREA
ParentalKILYFDHLLFSLHALVKLGVPQNTLLVQTLLRTIQVKSKEIFEKCCTLLNVIIITLVKCIAVRCVVSDDR
KILYFDHLLFSLHALVKLGVPQNTLLVQTLLRTIQ....E..E.C...L......L..C.......S..R
RetrocopyKILYFDHLLFSLHALVKLGVPQNTLLVQTLLRTIQERINECDERCLSILSAVLEALEPCKNEHALRSGLR
ParentalILVDQHVWKIKSIFTLQTVMKYIGQDTPIALKKKLEMKALKELDRFSLLNSQHMFEVLAAMNYRSVVLLN
ILVDQHVWKIKSIFTLQTVMKYIGQDTPIALKKKLEMKALKELDRFSLLNSQHMFEVLAAMNYR.VVLLN
RetrocopyILVDQHVWKIKSIFTLQTVMKYIGQDTPIALKKKLEMKALKELDRFSLLNSQHMFEVLAAMNYRPVVLLN
ParentalECSAKVIDNIHGCPFKILNNILRSCKDLRYRNLKLFEGIADYVHTTFDIWTLKQVLFLLILFENLGFRPI
ECSAKVIDNIHGCPFKILNNILRSCKDLRYRNLKLFEGIADYVHTTFDIWTLKQVLFLLILFENLGFRPI
RetrocopyECSAKVIDNIHGCPFKILNNILRSCKDLRYRNLKLFEGIADYVHTTFDIWTLKQVLFLLILFENLGFRPI
ParentalGLMNLLMKKVVEEPGSLNTKSIVSILHVYSSLNHSCQSQDKEFLDVMAAALTGCLHHISSQNLLNAVYSF
GLMNLLMKKVVEEPGSLN.KSIVSILHVYSSLNHSCQSQDKEFLDVMAAALTGCLHHISSQNLLNAVYSF
RetrocopyGLMNLLMKKVVEEPGSLNMKSIVSILHVYSSLNHSCQSQDKEFLDVMAAALTGCLHHISSQNLLNAVYSF
ParentalCMMNYFPLAPVNQLLQDDVISELLASDDREKNVHRLHILDTCLKLDDTAYHKALDLALPQPPSVPSCPNT
CMMNYFPLAPVNQLLQDDVISELLASDDREKNVHRLHILDTCLKLDDTAYHKALDLALPQPPSVPSCPNT
RetrocopyCMMNYFPLAPVNQLLQDDVISELLASDDREKNVHRLHILDTCLKLDDTAYHKALDLALPQPPSVPSCPNT
ParentalKVAEVLSRLLGGEGYFSKNVQLPHNYHIDFEIRMDTKRSQVLPFSDADITCATNIQRVAVLCVPRSSYCL
KVAEVLSRLLGGEGYFSKNVQLPHNYHIDFEIRMDTKRSQVLPFSDADITCATNIQRVAVLCVPRSSYCL
RetrocopyKVAEVLSRLLGGEGYFSKNVQLPHNYHIDFEIRMDTKRSQVLPFSDADITCATNIQRVAVLCVPRSSYCL
ParentalYSSHPRGILAMKMRHLNLMGFHVILVNN
YSSHPRGILAMKMRHLNLMGFHVILVNN
RetrocopyYSSHPRGILAMKMRHLNLMGFHVILVNN

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 1 .99 RPM 5 .19 RPM
SRP017611_kidney 1 .62 RPM 7 .91 RPM
SRP017611_liver 0 .46 RPM 2 .24 RPM

ChIP-Seq - click to see more details

Oryctolagus cuniculus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_ocun_167 retrocopy.

TSS - click to see more details

Oryctolagus cuniculus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ocun_167 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ocun_167 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Oryctolagus cuniculus ENSOCUG00000010515 1 retrocopy
retro_ocun_167 ,




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