RetrogeneDB ID:

retro_lafr_30

Retrocopy
location
Organism:Elephant (Loxodonta africana)
Coordinates:scaffold_30:17576856..17578518(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSLAFG00000030288
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:GK
Ensembl ID:ENSLAFG00000007632
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_lafr_30
ATGGCAGCCCCGAAGAAAGCAGTTGAAGGGCCGTTAGTGGGGGCGGTGGTCCAAGGCACTGACTGCAGTCGCTTTCTGGT
TTTCAATTCAAAAACAGCGGAACTACTTACTTATTATCAAGTTGAATTAACACCAGAGTTTCCAAAAGAAGGATGGGTGG
AACAAGACCCCAAAGAAATTCTGCAGTCCGTGTATGAGTGTATAGAGAGAACGTGTGAGAAACTTGATAAGCTTAATATT
GATGTATCTAACATAAAAGCTATTGGTGTCACCAATCAGAGGGAGACCACTATAGTCTGGGACAAGTTAACTGGAGAGCC
TCTCTGCAATGCTGTGGTGTGGCTTGACCTAAGAACCCAGGCTACCGTTGAGAATCTCAGTAAAAAAATACCAGGAAATA
ATAACTTTGTCAAGTCCAAGACAGGCCTTCCACTTAGCACTTATTTCAGTGCAGTGAAACTTCGTTGGATGCTTGACAAT
GTAAGAAAAGTTCAAAAGGCTGTTGAAGATGGTAGAGCTCTTTTTGGTACAATTGATTCATGGCTTATCTGGAGTTTAAC
AGGAGGAGCTAGTGGAGGTGTCCATTGTACAGATGTAACAAATGCAAGTAGGACTATGCTTTTCAACATTCATTCTTTGG
AATGGGATAAAGAGCTCTGTGACTTTTTTGATATTCCAATGGATATTCTTCCAAAAGTCGGGAGTTCTTCTGAGATCTAT
GGCCAAATGAAAACTGGGTCCTTGGAAGGTGTGCCAATATCTGGATGCTTGGGGGACCAATCTGCTGCATTAGTAGGACA
AATGTGCTTTCAGGAAGGACAAGCCAAAAACACTTATGGAACAGGTTGTTTCTTATTATGTAATACAGGTCGCAACTGCA
TGTTTTCTGAACATGGCCTTCTAACCACAGTGGCTTACAAACTAGGCAGAGACAAGCCAGTAATTTATGCATTGGAAGGT
TCTGTTGCTATAGCTGGTGCTGCTGTTCGCTGGCTGAAAGACAATCTTGGAATTCTAGAGACCCCAGAAGAAATCGAAAT
ACTTGCTAAAGAAGCAGGTACTTCTTATGGCTGTTACTTCATTCCAGCGTTTTCAGGGTTATATGCACCTTATTGGGAGC
CCAGTGCCAGAGGGATCATCTGTGGTCTTACTCAGTTCACCAATAAATGTCATATTGCTTTTGCTGCATTAGAAGCTATT
TGTTTCCAAACCCGAGAGATTTTGGATGCCATGATTCATGACTCTGGAATTTCATTCAGTCATTTGCAGGTAGATGGAAG
AATGACTAACAACAAAGTTCTGATGCAACTGCAAGCAGACATTCTACATATTCCAGTAGTAAAGCCCCGTATTGCTGAAA
CAACTGCACTGGGAGCTGCCATGGCAGCAGGAGCTGCAGAAGGAGTGGGCGTTTGGAGTCTAGAACCTGACGGTTTGTCA
GCCATTGTGATGGAACGGTTCGAACCACAAATCAAGGCCACAGAAAGTGAAACTCGTTATGCTACATGGAAGAGAGCTGT
GATGAAATCAATGGGTTGGGTTACAACTCAGACTCCTGAAAGTCGTGACCCTAGTATCTTCTCTAGTCTGCCCTTGGGCA
TTTTTATAGTGAGTAGCATGATAATGTTAATTGGAGCAAGATACATCTCAGGTATCCCATAA

ORF - retro_lafr_30 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.51 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAAVKEAVLGPLVGAVDQGTSSTRFLVFNSKTAELLSHHQVEIKQEFPREGWVEQDPKEILQSVYECIEK
MAA.K.AV.GPLVGAV.QGT...RFLVFNSKTAELL...QVE...EFP.EGWVEQDPKEILQSVYECIE.
RetrocopyMAAPKKAVEGPLVGAVVQGTDCSRFLVFNSKTAELLTYYQVELTPEFPKEGWVEQDPKEILQSVYECIER
ParentalTCEKLRELNIDISYIKAIGVSNQRETTVVWDKLTGEPLYNALVWLDLRTQPTVDCLRRRIPGNNNFVKSK
TCEKL..LNID.S.IKAIGV.NQRETT.VWDKLTGEPL.NA.VWLDLRTQ.TV..L...IPGNNNFVKSK
RetrocopyTCEKLDKLNIDVSNIKAIGVTNQRETTIVWDKLTGEPLCNAVVWLDLRTQATVENLSKKIPGNNNFVKSK
ParentalTGLPISTYFSAVKLRWLLDHVRNVRKAVQEGRALFGTIDSWLIWSLTGGAKGGVHCTDVTNASRTMLFNI
TGLP.STYFSAVKLRW.LD.VR.V.KAV..GRALFGTIDSWLIWSLTGGA.GGVHCTDVTNASRTMLFNI
RetrocopyTGLPLSTYFSAVKLRWMLDNVRKVQKAVEDGRALFGTIDSWLIWSLTGGASGGVHCTDVTNASRTMLFNI
ParentalHSLEWDKELCDFFGVPMAILPNVRSCSEIYGLMKAGALEGVPISGCLGDQSAALVGQMCFRDGQAKNTYG
HSLEWDKELCDFF..PM.ILP.V.S.SEIYG.MK.G.LEGVPISGCLGDQSAALVGQMCF..GQAKNTYG
RetrocopyHSLEWDKELCDFFDIPMDILPKVGSSSEIYGQMKTGSLEGVPISGCLGDQSAALVGQMCFQEGQAKNTYG
ParentalTGCFLLCNTGHKCVFSDHGLLTTVAYKLGRDKPVYYALEGSVAIAGAVIRWLRDNLGIISTSEEIERLAK
TGCFLLCNTG..C.FS.HGLLTTVAYKLGRDKPV.YALEGSVAIAGA..RWL.DNLGI..T.EEIE.LAK
RetrocopyTGCFLLCNTGRNCMFSEHGLLTTVAYKLGRDKPVIYALEGSVAIAGAAVRWLKDNLGILETPEEIEILAK
ParentalEVGTSYGCYFVPAFSGLYAPYWEPSARGIICGLTQFTNKCHIAFAALEAVCFQTREILEAMNRDCGIPLS
E.GTSYGCYF.PAFSGLYAPYWEPSARGIICGLTQFTNKCHIAFAALEA.CFQTREIL.AM..D.GI..S
RetrocopyEAGTSYGCYFIPAFSGLYAPYWEPSARGIICGLTQFTNKCHIAFAALEAICFQTREILDAMIHDSGISFS
ParentalHLQVDGGMTSNKILMQLQADILYIPVVKPSMPETTALGAAMAAGAAEGVGVWSLEPEDLSAVTMERFEPQ
HLQVDG.MT.NK.LMQLQADIL.IPVVKP...ETTALGAAMAAGAAEGVGVWSLEP..LSA..MERFEPQ
RetrocopyHLQVDGRMTNNKVLMQLQADILHIPVVKPRIAETTALGAAMAAGAAEGVGVWSLEPDGLSAIVMERFEPQ
ParentalINADESEIRYSTWKKAVMKSIGWATTRPFDRGDPSIFCSLPLGFFIVSSMVMLIGARYI
I.A.ESE.RY.TWK.AVMKS.GW.TT......DPSIF.SLPLG.FIVSSM.MLIGARYI
RetrocopyIKATESETRYATWKRAVMKSMGWVTTQTPESRDPSIFSSLPLGIFIVSSMIMLIGARYI

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






Loxodonta africana was not studied using RNA-Seq expression data.
Loxodonta africana was not studied using ChIP-Seq data.
Loxodonta africana was not studied using EST data.
Loxodonta africana was not studied using FANTOM5 data.
retro_lafr_30 was not experimentally validated.

Retrocopy orthology:
Loxodonta africana 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 14 parental genes, and 25 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000076333 retrocopies
Cavia porcellus ENSCPOG000000032612 retrocopies
Echinops telfairi ENSETEG000000082792 retrocopies
Felis catus ENSFCAG000000042641 retrocopy
Homo sapiens ENSG000001988144 retrocopies
Loxodonta africana ENSLAFG00000007632 1 retrocopy
retro_lafr_30 ,
Monodelphis domestica ENSMODG000000024171 retrocopy
Mus musculus ENSMUSG000000250592 retrocopies
Nomascus leucogenys ENSNLEG000000101022 retrocopies
Oryctolagus cuniculus ENSOCUG000000130232 retrocopies
Rattus norvegicus ENSRNOG000000341162 retrocopies
Sarcophilus harrisii ENSSHAG000000064701 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000087321 retrocopy
Tarsius syrichta ENSTSYG000000082491 retrocopy



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