RetrogeneDB ID:

retro_lafr_717

Retrocopy
location
Organism:Elephant (Loxodonta africana)
Coordinates:scaffold_32:4085741..4086086(-)
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:ENSLAFG00000004824
Aliases:None
Description:Ferritin [Source:UniProtKB/TrEMBL;Acc:G3SV12]


Retrocopy-Parental alignment summary:






>retro_lafr_717
AGTCTGGAGCACGAAGTCACCTACATCTGCCTGTCCATGTCTTACTACTTTGACCGTGGCGATGTGGCTTTGAAAAATTT
TGCCAAATACTTTCTTCACCAATCTCAGTGAGGAGAGAGAACATGCTGAGAAACATGAAGCTGCAGAACCAATGAGGTGA
TGGAATCTTCTGCAGTATATCAAGAAACCAGATCATGAGGACTGGAAGAGCGGGATGAATACAGTGGAGTGTGCATTACA
CTTGGGAAGAAGCATCAGTCACTACTGGAACTGTACGAACTGGCCACTGACAAAAACAACCCCTGTTTGTGTGACCTCAT
TGAGACTCATTACCTAAAAGAGCAG

ORF - retro_lafr_717 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 65. %
Parental protein coverage: 68.42 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalNLELYASYVYLSLSYYFDRDDVALKNFAKYFLHQSH-EEREHAEKLMKLQNQRGGRIF-LQDIKKPDYDD
.LE....Y..LS.SYYFDR.DVALKNFAKYFLHQS....RE.....MKLQNQ.G..IF.LQ.IKKPD..D
RetrocopySLEHEVTYICLSMSYYFDRGDVALKNFAKYFLHQSQ<VRRENMLRNMKLQNQ*GDGIF<LQYIKKPDHED
ParentalWDSGVNAMECA-LNLEKSVNQSLLELHKLATDKNDPHLCDFIETHYLHEQ
W.SG.N..ECA...L.K...QSLLEL..LATDKN.P.LCD.IETHYL.EQ
RetrocopyWKSGMNTVECA<ITLGKK-HQSLLELYELATDKNNPCLCDLIETHYLKEQ

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_717 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 28 parental genes, and 306 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000168311 retrocopy
Bos taurus ENSBTAG0000001118410 retrocopies
Canis familiaris ENSCAFG000000159011 retrocopy
Callithrix jacchus ENSCJAG0000001908916 retrocopies
Cavia porcellus ENSCPOG000000265863 retrocopies
Dasypus novemcinctus ENSDNOG0000001712883 retrocopies
Felis catus ENSFCAG000000073821 retrocopy
Homo sapiens ENSG0000016799620 retrocopies
Gorilla gorilla ENSGGOG000000277227 retrocopies
Latimeria chalumnae ENSLACG000000174261 retrocopy
Loxodonta africana ENSLAFG00000004824 12 retrocopies
Loxodonta africana ENSLAFG0000003124811 retrocopies
Microcebus murinus ENSMICG000000058516 retrocopies
Myotis lucifugus ENSMLUG0000002572616 retrocopies
Monodelphis domestica ENSMODG000000075829 retrocopies
Mustela putorius furoENSMPUG000000140303 retrocopies
Mus musculus ENSMUSG000000246614 retrocopies
Nomascus leucogenys ENSNLEG0000000332129 retrocopies
Oryctolagus cuniculus ENSOCUG000000141084 retrocopies
Otolemur garnettii ENSOGAG000000253549 retrocopies
Ochotona princeps ENSOPRG000000107347 retrocopies
Procavia capensis ENSPCAG0000001037713 retrocopies
Pongo abelii ENSPPYG0000000317312 retrocopies
Pteropus vampyrus ENSPVAG000000130383 retrocopies
Rattus norvegicus ENSRNOG000000226199 retrocopies
Sus scrofa ENSSSCG000000145409 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000145211 retrocopy
Vicugna pacos ENSVPAG000000039566 retrocopies



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