RetrogeneDB ID:

retro_dord_350

Retrocopy
location
Organism:Kangaroo rat (Dipodomys ordii)
Coordinates:scaffold_13405:11713..11941(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Eif1
Ensembl ID:ENSDORG00000013853
Aliases:None
Description:eukaryotic translation initiation factor 1 [Source:MGI Symbol;Acc:MGI:105125]


Retrocopy-Parental alignment summary:






>retro_dord_350
CAATAGAGAAATGACAGGAAGACCCTTACTACTGTCCAAGGGATCACTGACTATTATGATAAAAAGTAACTACTGAAGGT
GTTTAAGAAGAAATTTGCCTGCAATGGTACTGTAATTAAGCATCCAGAATATGGAGAAGTAATTCAGCTACAGGATGACC
AGTGCAAGAACATATGCCAGTTCCTGGTGGAGCTTGGACAGGCTAAGGACGATCAGTTGAAGGTTCAT

ORF - retro_dord_350 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.21 %
Parental protein coverage: 75.25 %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalQQRNGRKTLTTVQGIADDYDKKKLVKAFKKKFACNGTVIEHPEYGEVIQLQGDQRKNICQFLVEIGLAKD
Q.RN.RKTLTTVQGI.D.YDKK.L.K.FKKKFACNGTVI.HPEYGEVIQLQ.DQ.KNICQFLVE.G.AKD
RetrocopyQ*RNDRKTLTTVQGITDYYDKK*LLKVFKKKFACNGTVIKHPEYGEVIQLQDDQCKNICQFLVELGQAKD
ParentalDQLKVH
DQLKVH
RetrocopyDQLKVH

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






Dipodomys ordii was not studied using RNA-Seq expression data.
Dipodomys ordii was not studied using ChIP-Seq data.
Dipodomys ordii was not studied using EST data.
Dipodomys ordii was not studied using FANTOM5 data.
retro_dord_350 was not experimentally validated.

Retrocopy orthology:
Dipodomys ordii 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 117 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000056209 retrocopies
Bos taurus ENSBTAG000000022821 retrocopy
Canis familiaris ENSCAFG000000295844 retrocopies
Choloepus hoffmanni ENSCHOG000000083787 retrocopies
Callithrix jacchus ENSCJAG000000121206 retrocopies
Cavia porcellus ENSCPOG000000143503 retrocopies
Dasypus novemcinctus ENSDNOG0000000785611 retrocopies
Dipodomys ordii ENSDORG000000136894 retrocopies
Dipodomys ordii ENSDORG00000013853 4 retrocopies
Equus caballus ENSECAG000000125161 retrocopy
Felis catus ENSFCAG000000244552 retrocopies
Homo sapiens ENSG000001738122 retrocopies
Gorilla gorilla ENSGGOG000000272012 retrocopies
Loxodonta africana ENSLAFG000000028522 retrocopies
Macropus eugenii ENSMEUG000000153606 retrocopies
Myotis lucifugus ENSMLUG000000050773 retrocopies
Mustela putorius furoENSMPUG000000108836 retrocopies
Nomascus leucogenys ENSNLEG000000110133 retrocopies
Otolemur garnettii ENSOGAG000000315776 retrocopies
Pongo abelii ENSPPYG000000296671 retrocopy
Pan troglodytes ENSPTRG000000091753 retrocopies
Pteropus vampyrus ENSPVAG000000106294 retrocopies
Rattus norvegicus ENSRNOG000000327691 retrocopy
Sorex araneus ENSSARG000000062871 retrocopy
Sarcophilus harrisii ENSSHAG000000057291 retrocopy
Sus scrofa ENSSSCG000000174306 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000000271915 retrocopies
Tursiops truncatus ENSTTRG000000171353 retrocopies



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