RetrogeneDB ID:

retro_lafr_872

Retrocopy
location
Organism:Elephant (Loxodonta africana)
Coordinates:scaffold_42:10551884..10552415(-)
Located in intron of:ENSLAFG00000010596
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NDUFV2
Ensembl ID:ENSLAFG00000010520
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_lafr_872
AAAAAATACCCAGAAGGGCATAAAGCAGCAGCTGTGCTTCCAGTCCTGATTTAGTGCAGAGACAGGATGGATGGTTGCCC
ATCTCTGCCATGAACAAGGGTGCAGAAGTTTTACAAATATGTCCAACGATGGTATATGAAATAGCAACTTTTTATACAAT
GTATAATCAAAAGCCAGTTGGCAAGTATCACATTCAGGTCTGCTCTACCTCACCTTGCATGCTTTGAGATTCTGACTGCA
TAGTGGACCGCCATTCAGAGAAAGCTTGGAATAAAGGTTGGGGAGACTGTACCTGACAAACTTTTCCACATAGAGGTGGA
ATGTTTAGATGCCTGTGTAAATGCACCAATGGTTCAAATAAACAACTGCTGTGAAGATCTGACACCTAAGGATATTGAAG
AAATTATTGATGAGCTCAAGGCTGGCAAAATTCCAAAACCTGGGCCACGGAGTGGATGCGTCTCTTGTGAGCCAGCTGGT
GGTCTTACCTCTTTGACTGAACAACCCAAAGGAACTGGTTTTGGTATACAA

ORF - retro_lafr_872 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.32 %
Parental protein coverage: 71.31 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalKNYPEGHKAAAVLPVL-DLAQRQNGWLPISAMNKVAEILQVPPMRVYEVATFYTMYNRKPVGKYHIQVCT
K.YPEGHKAAAVLPVL.DL.QRQ.GWLPISAMNK.AE.LQ..P..VYE.ATFYTMYN.KPVGKYHIQVC.
RetrocopyKKYPEGHKAAAVLPVL<DLVQRQDGWLPISAMNKGAEVLQICPTMVYEIATFYTMYNQKPVGKYHIQVCS
ParentalTTPCMLRDSDSILE-AIQRKLGIKVGETTPDKLFTLIEVECLGACVNAPMVQINDNYYEDLTPKDVEEII
T.PCML.DSD.I...AIQRKLGIKVGET.PDKLF..IEVECL.ACVNAPMVQIN.N..EDLTPKD.EEII
RetrocopyTSPCML*DSDCIVD>AIQRKLGIKVGETVPDKLFH-IEVECLDACVNAPMVQIN-NCCEDLTPKDIEEII
ParentalDELKAGKIPKPGPRSGRFSCEPAGGLTSLTEAPKGPGFGVQ
DELKAGKIPKPGPRSG..SCEPAGGLTSLTE.PKG.GFG.Q
RetrocopyDELKAGKIPKPGPRSGCVSCEPAGGLTSLTEQPKGTGFGIQ

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_872 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 21 parental genes, and 46 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000074151 retrocopy
Bos taurus ENSBTAG000000048712 retrocopies
Choloepus hoffmanni ENSCHOG000000137141 retrocopy
Cavia porcellus ENSCPOG000000084794 retrocopies
Dasypus novemcinctus ENSDNOG000000170361 retrocopy
Dipodomys ordii ENSDORG000000081795 retrocopies
Erinaceus europaeus ENSEEUG000000068181 retrocopy
Homo sapiens ENSG000001781271 retrocopy
Loxodonta africana ENSLAFG00000010520 2 retrocopies
retro_lafr_133, retro_lafr_872 ,
Macaca mulatta ENSMMUG000000220951 retrocopy
Mustela putorius furoENSMPUG000000047102 retrocopies
Oryctolagus cuniculus ENSOCUG000000098993 retrocopies
Otolemur garnettii ENSOGAG000000101182 retrocopies
Ochotona princeps ENSOPRG000000127882 retrocopies
Procavia capensis ENSPCAG000000062842 retrocopies
Rattus norvegicus ENSRNOG000000425031 retrocopy
Sorex araneus ENSSARG000000118762 retrocopies
Sus scrofa ENSSSCG000000036831 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000162591 retrocopy
Tupaia belangeri ENSTBEG000000154268 retrocopies
Tursiops truncatus ENSTTRG000000024263 retrocopies



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