RetrogeneDB ID:

retro_lafr_91

Retrocopy
location
Organism:Elephant (Loxodonta africana)
Coordinates:scaffold_14:1386067..1387246(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSLAFG00000008485
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:PDHA1
Ensembl ID:ENSLAFG00000009426
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_lafr_91
ATGAAGAAGATGCTCGCCGCAGTTGTCTCCCGTGTGTTGTCGGGCGTCGCCACCCAGAAGCCGTCCAGCAGAGTGCTGGT
GGCATCCTGTAACTATTCAAAACAGGCTACATTTGAAATTAAGAAATGTGATCTGTATAATTTGGAAGAGGGCCCTCCTG
TCACGGCAGAGCTCACCAGGGAGGATGGGCTCAAATACTACCGGCTGATGCAGACCGTTCGCCGAATGGAGTTAAAAGCA
GATCAGCTGTATAAGCAGAAATTCATTCGTGGTTTCTGCCATTTATGTGACGGTCAGGAAGCGTGTTGTGTTGGGCTTGA
GGCAGGTATAAGACACACGGATCATGTCATCACATCCTATCGGGCGCATGGCATATGCGTTACTCGGGGAATTCCCGTTC
GAGCAGTTCTTGCAGAGCTTACAGGACGAAGAGGAGGTTGTGCTAAAGGAAAAGGTGGATCAATGCATATGTATGCCAAG
AACTTCTACGGGGGCAACGGCATTGTTGGAGCTCAGGTGCCCCTGGGAGCTGGTATTGCCTTGGCCTGTAAATATAAGGA
AAACAAGGAGATCTGTTTGACTTTATATGGAGATGGCGCTGCTAATCAGGGTCAGCTATTTGAAGCTTACAATATGGCAG
CTTTGTGGAAATTGCCTTGTGTTTTCATCTGTGAGAATAACCGCTATGGAATGGGAACAGCTGTTGAGAGAGCAGCAGCC
ACTCCTGATTATTACAAGAGAGGCAGTTTTATTCCGGGGCTAAGGGTAGATGGAATGGATATTCTGTGTGTCCGGGAGGC
CACAAAGTTCGCCGCTGACTATTGTAGATCTGGAAAGGGGCCCATACTGATGGAGCTGCAGACTTACCGTTATCACGGAC
ACAGTATGAGTGATCCTGGAATCAGTTATCGTTCCCGGCAAGAAATTCAGGATGTAAGAAGTAAGAGTGACCCTATTATG
CTTCTCAAAGATAAAATGGTAAACAGCAAGCTTGCCACTGTGGAAGAATTCAAGGAAATTGATGGTGAAGTGAAGAAAGA
AATTGAGGATGCGGCCCAATTTGCCATAACTGATCCAGAACCACCCTTGGAGGAATTAGGCCATCACATCTACAGCAGTA
GTCCACCTTTTGAACTTCGTGGTGCAAATCAGTGGATCAAGTTTAAATCGATCAGTTAA

ORF - retro_lafr_91 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.75 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMRKMLAAV-SRVLSGAAP-KPASRVLVASRNFANDATFEIKKCDLHRLEEGPPVTTVLTREDGLRYYRMM
M.KMLAAV.SRVLSG.A..KP.SRVLVAS.N....ATFEIKKCDL..LEEGPPVT..LTREDGL.YYR.M
RetrocopyMKKMLAAVVSRVLSGVATQKPSSRVLVASCNYSKQATFEIKKCDLYNLEEGPPVTAELTREDGLKYYRLM
ParentalQTVRRMELKADQLYKQKIIRGFCHLCDGQEACCVGLEAGINPTDHLITAYRAHGFTFTRGLSVREILAEL
QTVRRMELKADQLYKQK.IRGFCHLCDGQEACCVGLEAGI..TDH.IT.YRAHG...TRG..VR..LAEL
RetrocopyQTVRRMELKADQLYKQKFIRGFCHLCDGQEACCVGLEAGIRHTDHVITSYRAHGICVTRGIPVRAVLAEL
ParentalTGRRGGCAKGKGGSMHMYAKNFYGGNGIVGAQVKEPSPFQLLTSQASTDSSCI-LYSHGPIEEYFQGQIF
TGRRGGCAKGKGGSMHMYAKNFYGGNGIVGAQV.......L..........C..LY..G......QGQ.F
RetrocopyTGRRGGCAKGKGGSMHMYAKNFYGGNGIVGAQVPLGAGIALACKYKENKEICLTLYGDGAAN---QGQLF
ParentalEAYNMAALWKLPCIFICENNRYGMGTSVERAAASTDYYKRGDFIPGLRVDGMDVLCVREATRFAAAYCRS
EAYNMAALWKLPC.FICENNRYGMGT.VERAAA..DYYKRG.FIPGLRVDGMD.LCVREAT.FAA.YCRS
RetrocopyEAYNMAALWKLPCVFICENNRYGMGTAVERAAATPDYYKRGSFIPGLRVDGMDILCVREATKFAADYCRS
ParentalGKGPILMELQTYRYHGHSMSDPGVSYRTREEIQEVRSKSDPIMLLKDRMVNSNLASVEELKEIDVEVRKE
GKGPILMELQTYRYHGHSMSDPG.SYR.R.EIQ.VRSKSDPIMLLKD.MVNS.LA.VEE.KEID.EV.KE
RetrocopyGKGPILMELQTYRYHGHSMSDPGISYRSRQEIQDVRSKSDPIMLLKDKMVNSKLATVEEFKEIDGEVKKE
ParentalIEDAAQFATADPEPPLEELGHHIYSSEPPFEVRGANQWIKFKSVS
IEDAAQFA..DPEPPLEELGHHIYSS.PPFE.RGANQWIKFKS.S
RetrocopyIEDAAQFAITDPEPPLEELGHHIYSSSPPFELRGANQWIKFKSIS

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_91 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 5 parental genes, and 5 retrocopies.

Species Parental gene accession Retrocopies number
Echinops telfairi ENSETEG000000013921 retrocopy
Loxodonta africana ENSLAFG00000009426 1 retrocopy
retro_lafr_91 ,
Macaca mulatta ENSMMUG000000173361 retrocopy
Procavia capensis ENSPCAG000000041961 retrocopy
Sarcophilus harrisii ENSSHAG000000153751 retrocopy



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