RetrogeneDB ID:

retro_ogar_314

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873520.1:8295314..8297334(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOGAG00000003061
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:HSPA4L
Ensembl ID:ENSOGAG00000005754
Aliases:None
Description:heat shock 70kDa protein 4-like [Source:HGNC Symbol;Acc:17041]


Retrocopy-Parental alignment summary:






>retro_ogar_314
AGCCCGTTGTTGACTGTTGTTTCGGTTCCTCGTTTCTATACCGATGCAGAAAGACGATCGGTGATGGATGCTACACAGAT
TGCAGGTCTCAATTGCCTGCGATTAATGAATGAAACTACTGCAGTTGCTCTTGCATGTGGAATCTATAAGCAAGATCTTC
CTGCCTTAGAAGAGAAACCAAGAAATGTAGTTTTTGTAGACATGGGCCATTCTGCTTATCAAGTTTCTGTATGTGCATTT
AATAGAGGAAAACTGAAGGTTCTGGCCACTGCATTTGACACAACACTGGGAGGCAGAAAATTTGATGAAGTTTTAGTAAA
TCACTTCTGTGAAGAATTTGGGAAGAAATACAAGCTAGACATAAAGTCCAAAATCCGTGCATTATTACGACTCTCTCAGG
AGTGTGAGAAACTCAAGAAATTGATGAGTGCAAATGCTTCAGATCTCCCTCTGAGCATTGAGTGTTTTATGAATGACATT
GATGTATCTGGAACTATGAATAGAGGCAAATTTCTGGAAATGTGCGATGATCTCTTAGCTAGAGTGGAGCCACCACTTCG
TAGTGTTTTGGAACAAGCCAGGTTAAAGAAAGAAGATATTTATGCAGTGGAGATAGTTGGTGGTGCTACAAGAATTCCTG
CAGTAAAAGAGAAGATCAGCAAATTTTTTGGTAAAGAACTTAATACAACATTAAATGCTGATGAAGCTGTCACTCGAGGC
TGTGCATTGCAGTGTGCAATCTTATCACCTGCTTTCAAAGTCAGAGAATTTTCTGTCACTGATGTACTACCCTATCCAAT
CTCTCTGAGATGGAATTCTACAGCTGAAGAAGGGTCAAGTGACTGTGAAGTCTGCAAAAAATCATGCTGCTCCTTTCTCT
AAAGTTCTCACATTTTATAGAAAGGAACCTTTCACTCTTGAGGCCTATTACAGCTTTCCTCGGGAGTTGCCCTACCCAGA
TCCTGCTATAGCCCAGTTTTCAGTTCAGAAAGTCACTCCTCAGTCTGATGGCTCCAGTTCAAAAGTGAAAGTCAAGGTTC
GAGTAAATGTCCATGGCATTTTCAGTGTGTCTAGTGCATCCCTAGCAGAAGTACATAAGTCTGAGGAAAATGAGGAACCA
ATGGAAACAGACCAGAATGCGAAGGAGGAAGAGAAGATGCAGGTGGACCAGGAGGAAGCTCATGTGGAAGAGCAACAGCA
GCAGACGCCAGCAGAAAACAAGGCAGAGTCTGAAGAAATGGAGACTTCCCAAGCTGGATCAAAAGATAAAAAGATGGACC
AACCACCCCAAGCCAAGAAGGCAAAAGTGAAGACCAGTACTGTGGACCTGCCAATTGAAAATCAGCTATTATGGCAGATA
GACAAAGAGATGCTCAACTTGTACATTGAAAATGAGGGTAAGATGATCATGCAGGATAAACTGGAGAAGGAGCGGAATGA
TGCTAAGAATGCAGTGGAAGAATATGTGTATGAAATGAGAGACAAGCTTAGTGGTGAATATGAGAAGTTTGTGAGCGAAG
ATGATCGTAACAGTTTTACTTTGAAACTAGAAGATACTGAAAATTGGTTATATGAGGATGGAGAAGACCAGCCAAAGCAA
GTTTATGTTGATAAATTGGCTGAATTAAAAAATCTAGGTCAGCCTATTAAGTTACGGTTCCAGGAATCTGGAGAAAGACC
AAGATTATTTGATGAACTAGGGAAACAGATCCAACAATATATGAAAGCAATCAGTTCTTTCAAAAACAAGGAGGACCAGT
ATGACCATTTGGATGCTGCTGACATGATGAAGGTAGAAAAAAGCACAAATGAAGCAATGGAGTGGATGAATGACAAGCTG
AATCTGCAGAACAAACAGAGTCTGACTATGGATCCAGTTGTCAAGTCAAAAGAGATTGAAGCTAAAATTAAGGAGCTGAT
GAGTATCTGTAGCCCCATAATTTCAAAGCCCAAATCCAAAGTGGAACCTCCAAAGGAGGAGCAAAAAAATGCTGAGCAGA
ATGGACCAGTGGATGGACAA

ORF - retro_ogar_314 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 63.09 %
Parental protein coverage: 77.6 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalSPEICVLRIPSFFTDAERRSVMAAAQVAGLNCLRLMNETTAVALAYGIYKQDLPPLDEKPRNVIFIDMGH
SP...V...P.F.TDAERRSVM.A.Q.AGLNCLRLMNETTAVALA.GIYKQDLP.L.EKPRNV.F.DMGH
RetrocopySPLLTVVSVPRFYTDAERRSVMDATQIAGLNCLRLMNETTAVALACGIYKQDLPALEEKPRNVVFVDMGH
ParentalSAYQVSVCAFNKGKLKVLAAAFDPYLGGRNFDEALVDYFCDEFKTKYKINVKENSRALLRLYQECEKLKK
SAYQVSVCAFN.GKLKVLA.AFD..LGGR.FDE.LV..FC.EF..KYK...K...RALLRL.QECEKLKK
RetrocopySAYQVSVCAFNRGKLKVLATAFDTTLGGRKFDEVLVNHFCEEFGKKYKLDIKSKIRALLRLSQECEKLKK
ParentalLMSANASDLPLNIECFMNDLDVSSKMNRAQFEQLCASLLARVEPPLKAVMEQANLQREDISNIEIVGGAT
LMSANASDLPL.IECFMND.DVS..MNR..F...C..LLARVEPPL..V.EQA.L..EDI...EIVGGAT
RetrocopyLMSANASDLPLSIECFMNDIDVSGTMNRGKFLEMCDDLLARVEPPLRSVLEQARLKKEDIYAVEIVGGAT
ParentalRIPAVKEQITKFFLKDISTTLNADEAVARGCALQCAILSPAFKVREFSITDIVPYSITLRWKTSFEDGTG
RIPAVKE.I.KFF.K...TTLNADEAV.RGCALQCAILSPAFKVREFS.TD..PY.I.LRW....E.G..
RetrocopyRIPAVKEKISKFFGKELNTTLNADEAVTRGCALQCAILSPAFKVREFSVTDVLPYPISLRWNSTAEEGSS
ParentalECEVFC-KNHPAPFSKVITFHKKEPFELEAFYTNLHEVPYPDPRIGSFTIQNVFPQSDGDSSKVKVKVRV
.CEV.C.KNH.APFSKV.TF..KEPF.LEA.Y....E.PYPDP.I..F..Q.V.PQSDG.SSKVKVKVRV
RetrocopyDCEV-C>KNHAAPFSKVLTFYRKEPFTLEAYYSFPRELPYPDPAIAQFSVQKVTPQSDGSSSKVKVKVRV
ParentalNIHGIFSVASASVIEKQNLEGDHSDIPMETETSIKSENKDDVDKMQVDQEEGAHQKCHAEHTPEEEIDHT
N.HGIFSV.SAS..E...........PMET....K.E.K..VD......EE...Q.........EE....
RetrocopyNVHGIFSVSSASLAEVH--KSEENEEPMETDQNAKEEEKMQVDQEEAHVEEQQQQTPAENKAESEEMETS
ParentalGAKAKSTPSDKQERLNQTIKKGKVKSIDLPIQSTLCRQLGQDVLNSYIENEGKMIMQDKLEKERNDAKNA
.A..K....D..........K.K....DLPI...L..Q.....LN.YIENEGKMIMQDKLEKERNDAKNA
RetrocopyQAGSKDKKMDQPPQAKKA--KVKTSTVDLPIENQLLWQIDKEMLNLYIENEGKMIMQDKLEKERNDAKNA
ParentalVEEYVYDFRDKLGTVYEKFITPEDLNKLSAILEDTENWLYEEGEDQPKQVYVDKLQELKKYGQPIQMKYM
VEEYVY..RDKL...YEKF....D.N.....LEDTENWLYE.GEDQPKQVYVDKL.ELK..GQPI.....
RetrocopyVEEYVYEMRDKLSGEYEKFVSEDDRNSFTLKLEDTENWLYEDGEDQPKQVYVDKLAELKNLGQPIKLRFQ
ParentalEHEERPKALNDLGKKIQLVMKVIEAYRNKDERYDHLDPAEVEKVEKYISDAMSWLNSKMNAQNKLSLTQD
E..ERP.....LGK.IQ..MK.I....NK...YDHLD.A...KVEK....AM.W.N.K.N.QNK.SLT.D
RetrocopyESGERPRLFDELGKQIQQYMKAISSFKNKEDQYDHLDAADMMKVEKSTNEAMEWMNDKLNLQNKQSLTMD
ParentalPVVKVSEIVAKSKELDNFCNPIIYKPKPKVEVAEDKAKANSEHNGPMDRQ
PVVK..EI.AK.KEL...C.PII.KPK.KVE......K.N.E.NGP.D.Q
RetrocopyPVVKSKEIEAKIKELMSICSPIISKPKSKVEPPKEEQK-NAEQNGPVDGQ

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






RNA-Seq - click to see more details

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Otolemur garnettii was not studied using ChIP-Seq data.

EST - click to see more details

Otolemur garnettii was not studied using EST data.

TSS - click to see more details

Otolemur garnettii was not studied using FANTOM5 data.

Lab - click to see more details

retro_ogar_314 was not experimentally validated.

Retrocopy orthology:
Otolemur garnettii 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 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Otolemur garnettii ENSOGAG00000005754 1 retrocopy
retro_ogar_314 ,




Copyright © RetrogeneDB 2014-2017