RetrogeneDB ID:

retro_lafr_718

Retrocopy
location
Organism:Elephant (Loxodonta africana)
Coordinates:scaffold_32:7007142..7007574(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSLAFG00000031385
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:PLA2G12A
Ensembl ID:ENSLAFG00000000852
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_lafr_718
AATGGCATTCACAAGATAGACACATACCTGAAGGCCGCCTTGGACATCCTGGGAGGCAAGAATGGGCTCTGCCAATGTAA
GTGTGGTGAGGGATCTAAGCCTTACCCACGTTATTGTTATAAACCCTCTCCACCGAATGGGTATGGCTCTCCGCTGTTTG
GGTTCACATTAACACTGGCATCCCTTCCCTGACGAAGTGCTGCAACCAACACGACAGGTGCTACAAGGCCTGTGGCAAAA
GCACGAATGACTGTGACGAGGAGTTCCAGTACTGCCTCTCCAAGATCTGCCGAGATGTGCAGAAAACACTAGGACTCGCT
CAGCGTGTTCAGGCCTGTGAAACAACAATGGAGCTCTTGTTTGACAGTGTTGTGCATTTAAGGCTGTATACCAGACCTGG
ACAGCCAAAAAGCTGCATGTTGGTGTTGCTAC

ORF - retro_lafr_718 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.51 %
Parental protein coverage: 75.39 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalNGVHRIDTYLNAALDLLGGEDGLCQYKCNDGSKPYPRHGYKPSPPNGCGSPLFG-VHLNIGIPSLTKCCN
NG.H.IDTYL.AALD.LGG..GLCQ.KC..GSKPYPR..YKPSPPNG.GSPLFG.VH.N.GIPSLTKCCN
RetrocopyNGIHKIDTYLKAALDILGGKNGLCQCKCGEGSKPYPRYCYKPSPPNGYGSPLFG<VHINTGIPSLTKCCN
ParentalQHDRCYETCGKSKNDCDEAFQYCLSKICRDVQKTLGLAQHVQACETTVELLFDSVIHL-GCKPYLDSQRA
QHDRCY..CGKS.NDCDE.FQYCLSKICRDVQKTLGLAQ.VQACETT.ELLFDSV.HL.GC.P.LDSQ.A
RetrocopyQHDRCYKACGKSTNDCDEEFQYCLSKICRDVQKTLGLAQRVQACETTMELLFDSVVHL>GCIPDLDSQKA
ParentalACWCRY
ACWC.Y
RetrocopyACWCCY

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_718 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 29 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000152301 retrocopy
Callithrix jacchus ENSCJAG000000161692 retrocopies
Dasypus novemcinctus ENSDNOG000000165737 retrocopies
Homo sapiens ENSG000001237391 retrocopy
Gorilla gorilla ENSGGOG000000010822 retrocopies
Loxodonta africana ENSLAFG00000000852 2 retrocopies
retro_lafr_402, retro_lafr_718 ,
Mustela putorius furoENSMPUG000000086371 retrocopy
Mus musculus ENSMUSG000000279991 retrocopy
Otolemur garnettii ENSOGAG000000046861 retrocopy
Ochotona princeps ENSOPRG000000145052 retrocopies
Pan troglodytes ENSPTRG000000163621 retrocopy
Sus scrofa ENSSSCG000000091393 retrocopies
Tarsius syrichta ENSTSYG000000047564 retrocopies
Vicugna pacos ENSVPAG000000098421 retrocopy



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