RetrogeneDB ID:

retro_lafr_240

Retrocopy
location
Organism:Elephant (Loxodonta africana)
Coordinates:scaffold_10:22940435..22940711(-)
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:ENSLAFG00000013329
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_lafr_240
TGTTGAAATACATTAAAGTTATTAGGCAATTTAAAAAAAAGAAAAAAGCTCATAATTCCAAACATTGTAGAGGCCGCAGC
TGTCAGGGATGTTTCTGAAGCAAATGTCTGCAATGCATGCATGATTCCCAAGCTGCACATGAAACTGCATTATTGTGTGA
GTTGTGCCATTCACAGCAAGGTAGTCAGAGGCAGTTGTTGTGAAGTCCAGGACAGAATAGCCCCACCCCGATTTAGACCT
GCAGGTACTGCCCCACGACCTCCACCAAAATACATG

ORF - retro_lafr_240 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 63.44 %
Parental protein coverage: 80.87 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalCTNCARCVPKDKAIKKFVIRNIVEAAAVRDISEASVFDAYVLPKLYVKLHYCVSCAIHSKVVRNRSREAR
C.N........K..KK..I.NIVEAAAVRD.SEA.V..A...PKL..KLHYCVSCAIHSKVVR....E..
RetrocopyC*NTLKLLGNLKKRKKLIIPNIVEAAAVRDVSEANVCNACMIPKLHMKLHYCVSCAIHSKVVRGSCCEV-
ParentalKDRTPPPRFRPAGAAPRPPPKPM
.DR..PPRFRPAG.APRPPPK.M
RetrocopyQDRIAPPRFRPAGTAPRPPPKYM

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_240 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 184 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000032607 retrocopies
Bos taurus ENSBTAG000000388963 retrocopies
Choloepus hoffmanni ENSCHOG0000000148910 retrocopies
Cavia porcellus ENSCPOG000000236306 retrocopies
Dipodomys ordii ENSDORG000000011512 retrocopies
Echinops telfairi ENSETEG0000000451035 retrocopies
Felis catus ENSFCAG0000001397710 retrocopies
Homo sapiens ENSG0000019772813 retrocopies
Gorilla gorilla ENSGGOG000000115666 retrocopies
Loxodonta africana ENSLAFG00000013329 8 retrocopies
Myotis lucifugus ENSMLUG0000002996810 retrocopies
Macaca mulatta ENSMMUG000000170427 retrocopies
Mus musculus ENSMUSG000000253621 retrocopy
Ochotona princeps ENSOPRG000000057213 retrocopies
Pongo abelii ENSPPYG0000000464216 retrocopies
Pan troglodytes ENSPTRG000000050751 retrocopy
Pteropus vampyrus ENSPVAG0000000755915 retrocopies
Rattus norvegicus ENSRNOG000000055171 retrocopy
Sus scrofa ENSSSCG000000003742 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000001055912 retrocopies
Tursiops truncatus ENSTTRG0000001501216 retrocopies



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