RetrogeneDB ID:

retro_lafr_275

Retrocopy
location
Organism:Elephant (Loxodonta africana)
Coordinates:scaffold_11:46020769..46020985(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NDUFA5
Ensembl ID:ENSLAFG00000030971
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_lafr_275
AGAAACTACAAATGAGACGCTGAAAATGAGAGGCTGAGTAAGGTTAACGCAGAGCCAGATGTTAAAAAATTAGAAGACCA
ACTTCGGAATGGACAAATTGAAGAAGTGATTTTTCAGGCTGAAAATGAACTAAGTCTGGAGAGAAAAATGGTACAGTGGA
AACCATGGAAGCCTTTAGTGGAAGAACCTCCTGTCAATCAGTGGAAATGACCAATA

ORF - retro_lafr_275 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.33 %
Parental protein coverage: 75.79 %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalRKYTEEITNERLSKVNAEPDVKKLEDQLQSGQIEEVIFQAENELSLARKMVQWKPWEPLVEEPPANQWKW
R.Y.....NERLSKVNAEPDVKKLEDQL..GQIEEVIFQAENELSL.RKMVQWKPW.PLVEEPP.NQWK.
RetrocopyRNYK*DAENERLSKVNAEPDVKKLEDQLRNGQIEEVIFQAENELSLERKMVQWKPWKPLVEEPPVNQWK*
ParentalPI
PI
RetrocopyPI

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_275 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 17 parental genes, and 79 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000045122 retrocopies
Bos taurus ENSBTAG000000093345 retrocopies
Canis familiaris ENSCAFG000000251124 retrocopies
Callithrix jacchus ENSCJAG000000174491 retrocopy
Felis catus ENSFCAG000000271255 retrocopies
Homo sapiens ENSG0000012860910 retrocopies
Gorilla gorilla ENSGGOG000000229229 retrocopies
Loxodonta africana ENSLAFG00000030971 1 retrocopy
retro_lafr_275 ,
Monodelphis domestica ENSMODG000000153844 retrocopies
Mustela putorius furoENSMPUG000000068114 retrocopies
Mus musculus ENSMUSG000000230892 retrocopies
Otolemur garnettii ENSOGAG000000331376 retrocopies
Pongo abelii ENSPPYG0000001795610 retrocopies
Pan troglodytes ENSPTRG0000001963710 retrocopies
Rattus norvegicus ENSRNOG000000056983 retrocopies
Sus scrofa ENSSSCG000000166072 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000274041 retrocopy



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