RetrogeneDB ID:

retro_itri_289

Retrocopy
location
Organism:Squirrel (Ictidomys tridecemlineatus)
Coordinates:JH393282.1:29726996..29727209(+)
Located in intron of:ENSSTOG00000012208
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS26
Ensembl ID:ENSSTOG00000010559
Aliases:None
Description:ribosomal protein S26 [Source:HGNC Symbol;Acc:10414]


Retrocopy-Parental alignment summary:






>retro_itri_289
GTAGAGGCTGCAGCCATCAGGGTCATTTCCAAAGCAAGTTTTTTTGACACTTGTGTGCTTTCCAAACTGTTTGTGAAGCT
GCTACACTATGTGAGTTGTGCCATTCACAGCAATGTGGTCAGGAATCAATCTTGTGAGGCCTGGAAGAACTAAACACCCT
CACCTGATTTTAGATCTGCTGGTGCTGCCCCATGACCTCCACCAAAGCCCATG

ORF - retro_itri_289 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.42 %
Parental protein coverage: 62.28 %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalVEAAAVRDISEASVFDAYVLPKLYVKLHYCVSCAIHSKVVRNRSREARKDRTPPPRFRPAGAAPRPPPKP
VEAAA.R.IS.AS.FD..VL.KL.VKL...VSCAIHS.VVRN.S.EA.K..TP.P.FR.AGAAP.PPPKP
RetrocopyVEAAAIRVISKASFFDTCVLSKLFVKLLHYVSCAIHSNVVRNQSCEAWKN*TPSPDFRSAGAAP*PPPKP
ParentalM
M
RetrocopyM

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






Ictidomys tridecemlineatus was not studied using RNA-Seq expression data.
Ictidomys tridecemlineatus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_itri_289 retrocopy.
Ictidomys tridecemlineatus was not studied using FANTOM5 data.
retro_itri_289 was not experimentally validated.

Retrocopy orthology:
Ictidomys tridecemlineatus 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 15 parental genes, and 126 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000388963 retrocopies
Cavia porcellus ENSCPOG000000236306 retrocopies
Dipodomys ordii ENSDORG000000011512 retrocopies
Echinops telfairi ENSETEG0000000451035 retrocopies
Gorilla gorilla ENSGGOG000000115666 retrocopies
Loxodonta africana ENSLAFG000000133298 retrocopies
Myotis lucifugus ENSMLUG0000002996810 retrocopies
Macaca mulatta ENSMMUG000000170427 retrocopies
Mus musculus ENSMUSG000000253621 retrocopy
Pongo abelii ENSPPYG0000000464216 retrocopies
Pan troglodytes ENSPTRG000000050751 retrocopy
Rattus norvegicus ENSRNOG000000055171 retrocopy
Sus scrofa ENSSSCG000000003742 retrocopies
Ictidomys tridecemlineatus ENSSTOG00000010559 12 retrocopies
Tursiops truncatus ENSTTRG0000001501216 retrocopies



Copyright © RetrogeneDB 2014-2017