RetrogeneDB ID:

retro_lafr_1242

Retrocopy
location
Organism:Elephant (Loxodonta africana)
Coordinates:scaffold_927:12112..12355(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSLAFG00000032612
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_lafr_1242
AGGCAAAAAATTAAGGCTAAAAACAAGGCAAAACCAGTTAGCGTGAATCTTAAGAAGATACACATAGTGAATGAGGAAAA
AGTTAACTGAGTAAATTAAGCTTTTGTAGATATACGAAAGGAACTTGTACACTTCTCAAAAGGCCTTTCCTTCGAGCTTT
TGCAGAAACAGCGGATTCTTCAGCAGCATCATGAAAACAAGCCAGTTAATGTTGATGAAGCTACAAGATTAATGGCTCAG
TTG

ORF - retro_lafr_1242 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 72.84 %
Parental protein coverage: 75. %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalQKNFKSKNKAKPVTTNLKKINIVNDEKVNRVNKAFVDIQKELAHFSKGLTLEPLQKQ---LQHQENEPVN
....K.KNKAKPV..NLKKI.IVN.EKVN.VN.AFVDI.KEL.HFSKGL..E.LQKQ....QH.EN.PVN
RetrocopyRQKIKAKNKAKPVSVNLKKIHIVNEEKVN*VN*AFVDIRKELVHFSKGLSFELLQKQRILQQHHENKPVN
ParentalVDEATRLMAQL
VDEATRLMAQL
RetrocopyVDEATRLMAQL

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_1242 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 15 parental genes, and 46 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000024092 retrocopies
Bos taurus ENSBTAG000000322272 retrocopies
Callithrix jacchus ENSCJAG000000003795 retrocopies
Cavia porcellus ENSCPOG000000219655 retrocopies
Felis catus ENSFCAG000000263661 retrocopy
Homo sapiens ENSG000001767314 retrocopies
Gorilla gorilla ENSGGOG000000274644 retrocopies
Loxodonta africana ENSLAFG00000032612 4 retrocopies
Myotis lucifugus ENSMLUG000000061551 retrocopy
Macaca mulatta ENSMMUG000000063813 retrocopies
Mus musculus ENSMUSG000000787843 retrocopies
Pongo abelii ENSPPYG000000299103 retrocopies
Pan troglodytes ENSPTRG000000203855 retrocopies
Rattus norvegicus ENSRNOG000000389022 retrocopies
Sus scrofa ENSSSCG000000061442 retrocopies



Copyright © RetrogeneDB 2014-2017