RetrogeneDB ID:

retro_lafr_1026

Retrocopy
location
Organism:Elephant (Loxodonta africana)
Coordinates:scaffold_6:33211197..33211564(-)
Located in intron of:ENSLAFG00000010035
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:UBE2V1
Ensembl ID:ENSLAFG00000027359
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_lafr_1026
GGAGTAAAAGTCCCTCGCAACGTCCGACTGCTGGAAGAACTCGAAGAAGGCCAGAAAGGAGTAGGAGATGGCACACTTGG
CTGGTGTCTAGAAGATGATGAGGACATGATGCTTACAATATGGACAGGGATGATAATTGTGCCTTCAAGAACAATTTATG
AAAACCAGATACACAGCCTTAAAATAGAATATGGACCTAAATACCCAGAAGCACCCCCCTTTGTAAGATTTGTAACAAAA
ATTTATGGAGTTAATAGTTCTAATGGAGTGGTGGGCCCAAGAGCCATATCAGTGTTAGCAAAAATGGCAGAATTCATATA
GCATCAAAGTTGTCCTGCAAGAGCTTTGGCACCTAATGATGTCTAAA

ORF - retro_lafr_1026 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.6 %
Parental protein coverage: 84.35 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalGVKVPRNFRLLEELEEGQKGVGDGTVSWGLEDDEDMTLTRWTGMIIGPPRTIYENRIYSLKIECGPKYPE
GVKVPRN.RLLEELEEGQKGVGDGT..W.LEDDEDM.LT.WTGMII.P.RTIYEN.I.SLKIE.GPKYPE
RetrocopyGVKVPRNVRLLEELEEGQKGVGDGTLGWCLEDDEDMMLTIWTGMIIVPSRTIYENQIHSLKIEYGPKYPE
ParentalAPPFVRFVTKINMNGVNSSNGVVDPRAISVLA-KWQNSYSIKVVLQELRRLMMSK
APPFVRFVTKI...GVNSSNGVV.PRAISVLA.KWQNSYSIKVVLQEL..LMMSK
RetrocopyAPPFVRFVTKI--YGVNSSNGVVGPRAISVLA>KWQNSYSIKVVLQELWHLMMSK

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_1026 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 83 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000273164 retrocopies
Callithrix jacchus ENSCJAG0000003698410 retrocopies
Homo sapiens ENSG000002446874 retrocopies
Loxodonta africana ENSLAFG000000177491 retrocopy
Loxodonta africana ENSLAFG00000027359 2 retrocopies
retro_lafr_1026 , retro_lafr_1221,
Macaca mulatta ENSMMUG000000122286 retrocopies
Mustela putorius furoENSMPUG000000175573 retrocopies
Nomascus leucogenys ENSNLEG000000069878 retrocopies
Oryctolagus cuniculus ENSOCUG000000261724 retrocopies
Otolemur garnettii ENSOGAG0000002589412 retrocopies
Pan troglodytes ENSPTRG000000136151 retrocopy
Rattus norvegicus ENSRNOG0000002558021 retrocopies
Sus scrofa ENSSSCG000000306321 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000143226 retrocopies



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