RetrogeneDB ID:

retro_etel_1973

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_321093:51569..51837(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL34
Ensembl ID:ENSETEG00000003715
Aliases:None
Description:ribosomal protein L34 [Source:HGNC Symbol;Acc:10340]


Retrocopy-Parental alignment summary:






>retro_etel_1973
ATGGTTCAGTGTCTCACCTACCAGTGTAGGTGGTCCTATAATACAGCCTCTGACAAAACGAGGCTGTCCAGAACCCCTGG
GGGTAGAATTGTTTACCTTTGTACGAAGCAGGTTGGGAAACCACCAAACATCTGCACGTGGTGTGTGCCCAGGCCAACTT
GGAGGGGTCTGTACTCGGCGACCTAACATTCTCATGAGGTTGTCCACAACACAAAAACATGTCAGCAGGGTCTGTGGGGC
TTCCATGTGTGCTAAATGTGTCCCAGAC

ORF - retro_etel_1973 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 72.22 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMVQRLTYRRRLSYNTASNKTRLSRTPGNRIVYLYTKKVGKAPK-SACGVCPGRLRGVRAVRPKVLMRLSK
MVQ.LTY..R.SYNTAS.KTRLSRTPG.RIVYL.TK.VGK.P..SA.GVCPG.L.GV...RP..LMRLS.
RetrocopyMVQCLTYQCRWSYNTASDKTRLSRTPGGRIVYLCTKQVGKPPN>SARGVCPGQLGGVCTRRPNILMRLST
ParentalTKKHVSRAYGGSMCAKCVRD
T.KHVSR..G.SMCAKCV.D
RetrocopyTQKHVSRVCGASMCAKCVPD

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Echinops telfairi was not studied using RNA-Seq expression data.
Echinops telfairi was not studied using ChIP-Seq data.
Echinops telfairi was not studied using EST data.
Echinops telfairi was not studied using FANTOM5 data.
retro_etel_1973 was not experimentally validated.

Retrocopy orthology:
Echinops telfairi 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 20 parental genes, and 219 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000159934 retrocopies
Equus caballus ENSECAG000000197191 retrocopy
Echinops telfairi ENSETEG00000003715 53 retrocopies
Gadus morhua ENSGMOG000000099821 retrocopy
Macropus eugenii ENSMEUG000000093613 retrocopies
Myotis lucifugus ENSMLUG000000004644 retrocopies
Macaca mulatta ENSMMUG000000119011 retrocopy
Monodelphis domestica ENSMODG000000206013 retrocopies
Mustela putorius furoENSMPUG0000000887317 retrocopies
Mus musculus ENSMUSG0000006200626 retrocopies
Nomascus leucogenys ENSNLEG0000001293420 retrocopies
Ornithorhynchus anatinus ENSOANG000000078561 retrocopy
Otolemur garnettii ENSOGAG000000067741 retrocopy
Pongo abelii ENSPPYG0000001498818 retrocopies
Pelodiscus sinensis ENSPSIG000000032951 retrocopy
Rattus norvegicus ENSRNOG0000001638736 retrocopies
Sarcophilus harrisii ENSSHAG000000013571 retrocopy
Sarcophilus harrisii ENSSHAG000000020523 retrocopies
Tupaia belangeri ENSTBEG0000000357424 retrocopies
Xenopus tropicalis ENSXETG000000210951 retrocopy



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