RetrogeneDB ID:

retro_lafr_217

Retrocopy
location
Organism:Elephant (Loxodonta africana)
Coordinates:scaffold_1:101603699..101604173(-)
Located in intron of:ENSLAFG00000015514
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS7
Ensembl ID:ENSLAFG00000015087
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_lafr_217
TTCAGTTCAAGCGCAAAGATTGTAAAACCCAATGGCAAAAAGCTGGATGAATTCGAGTCTGGCATTTCTCAAGCGCTCCT
TGAACTGGAGATGAACTCGGACCTGAAGGCTCAGTTGAGGGAACTGAATATAACCGCAGCCAAGGAAATTGAAGTTGGTG
GTGGTCGGAAAGCTATCATAATCTTTGTTCCCGTTCCTCAACTGAAGTCTTTCCAGAAAATCCAAGTGAGGCTAGTACGT
GAACTGGAGAAAAAGTTCAGTGGAAAGCAAATTGTCTTTATTGCTCAGAGGAGAATTCTGCCCAAACCAACTCGAAAAAG
TCGTACAAAAAATAAGTAGAAGCGTCCCAGGAGCTGTACTCTGACAGCCGTGCATGATGCAATCCTTGAAGACTTGGTCT
TCCCACGTGAAATCGTGGGTAAGAGAATCCATGTAAAACTGGTTGGCAGCCGGCTTACAAAAGTTCATTTAGAA

ORF - retro_lafr_217 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.04 %
Parental protein coverage: 81.44 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalFSSSAKIVKPNGEKPDEFESGISQALLELEMNSDLKAQLRELNITAAKEIEVGGGRKAIIIFVPVPQLKS
FSSSAKIVKPNG.K.DEFESGISQALLELEMNSDLKAQLRELNITAAKEIEVGGGRKAIIIFVPVPQLKS
RetrocopyFSSSAKIVKPNGKKLDEFESGISQALLELEMNSDLKAQLRELNITAAKEIEVGGGRKAIIIFVPVPQLKS
ParentalFQKIQVRLVRELEKKFSGKHVVFIAQRRILPKPTRKSRTKNKQKRPRSRTLTAVHDAILEDLVFPSEIVG
FQKIQVRLVRELEKKFSGK..VFIAQRRILPKPTRKSRTKNK.KRPRS.TLTAVHDAILEDLVFP.EIVG
RetrocopyFQKIQVRLVRELEKKFSGKQIVFIAQRRILPKPTRKSRTKNK*KRPRSCTLTAVHDAILEDLVFPREIVG
ParentalKRIRVKLDGSRLIKVHLD
KRI.VKL.GSRL.KVHL.
RetrocopyKRIHVKLVGSRLTKVHLE

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_217 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 22 parental genes, and 109 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000184352 retrocopies
Bos taurus ENSBTAG000000162245 retrocopies
Canis familiaris ENSCAFG000000032631 retrocopy
Callithrix jacchus ENSCJAG000000164622 retrocopies
Cavia porcellus ENSCPOG000000097952 retrocopies
Dasypus novemcinctus ENSDNOG0000001328514 retrocopies
Equus caballus ENSECAG000000202532 retrocopies
Homo sapiens ENSG0000017186314 retrocopies
Loxodonta africana ENSLAFG00000015087 11 retrocopies
Myotis lucifugus ENSMLUG000000061211 retrocopy
Macaca mulatta ENSMMUG000000118707 retrocopies
Monodelphis domestica ENSMODG000000144952 retrocopies
Mus musculus ENSMUSG000000614772 retrocopies
Nomascus leucogenys ENSNLEG0000001540710 retrocopies
Oryctolagus cuniculus ENSOCUG000000085072 retrocopies
Otolemur garnettii ENSOGAG000000281651 retrocopy
Pongo abelii ENSPPYG0000002587212 retrocopies
Pan troglodytes ENSPTRG000000116153 retrocopies
Rattus norvegicus ENSRNOG000000085512 retrocopies
Sus scrofa ENSSSCG000000273535 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000248303 retrocopies
Tursiops truncatus ENSTTRG000000016166 retrocopies



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