RetrogeneDB ID:

retro_lafr_545

Retrocopy
location
Organism:Elephant (Loxodonta africana)
Coordinates:scaffold_20:26121644..26121872(-)
Located in intron of:ENSLAFG00000030074
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSLAFG00000025650
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_lafr_545
AACGATGAGGTGGAGGTGGAGGACTAACAGAATGATGAGGACTCAGAGTCTTATTTCTACCCTTGCCCATTTGGCAATAA
CTTTTCTGTCACCAAGGAAGATTTGGAGAATGGAAAAGATGTAACACCGTGTCCTAGCTGCTCTCTCATTTTAAAAGTGA
TTTATGATGAAAATCAATTTATGTATGGAGAAATAGTCCCAGCCCCTTCCTTCCACCAACAAATAATT

ORF - retro_lafr_545 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.05 %
Parental protein coverage: 92.68 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalHDEVEIEDFQYDEDSESYFYPCPCGDNFCITKEDLENGEDVATCPSCSLIIKVIYDKDQFMCGETVPAPS
.DEVE.ED.Q.DEDSESYFYPCP.G.NF..TKEDLENG.DV..CPSCSLI.KVIYD..QFM.GE.VPAPS
RetrocopyNDEVEVED*QNDEDSESYFYPCPFGNNFSVTKEDLENGKDVTPCPSCSLILKVIYDENQFMYGEIVPAPS
ParentalTNKELV
......
RetrocopyFHQQII

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_545 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 20 parental genes, and 29 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000039162 retrocopies
Canis familiaris ENSCAFG000000058811 retrocopy
Dasypus novemcinctus ENSDNOG000000120301 retrocopy
Dipodomys ordii ENSDORG000000116421 retrocopy
Equus caballus ENSECAG000000165911 retrocopy
Erinaceus europaeus ENSEEUG000000097901 retrocopy
Echinops telfairi ENSETEG000000162721 retrocopy
Felis catus ENSFCAG000000063551 retrocopy
Homo sapiens ENSG000001548131 retrocopy
Gorilla gorilla ENSGGOG000000221081 retrocopy
Loxodonta africana ENSLAFG00000025650 3 retrocopies
retro_lafr_31, retro_lafr_545 , retro_lafr_87,
Macaca mulatta ENSMMUG000000226922 retrocopies
Monodelphis domestica ENSMODG000000254723 retrocopies
Mus musculus ENSMUSG000000219051 retrocopy
Nomascus leucogenys ENSNLEG000000010962 retrocopies
Oryctolagus cuniculus ENSOCUG000000158621 retrocopy
Pongo abelii ENSPPYG000000140831 retrocopy
Pan troglodytes ENSPTRG000000146711 retrocopy
Tupaia belangeri ENSTBEG000000116751 retrocopy
Tursiops truncatus ENSTTRG000000077393 retrocopies



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