RetrogeneDB ID:

retro_dnov_421

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_4552:53917..54187(-)
Located in intron of:ENSDNOG00000019432
Retrocopy
information
Ensembl ID:ENSDNOG00000019433
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:EIF1
Ensembl ID:ENSDNOG00000007856
Aliases:None
Description:eukaryotic translation initiation factor 1 [Source:HGNC Symbol;Acc:3249]


Retrocopy-Parental alignment summary:






>retro_dnov_421
CCTGCTGGGACTGAGGATTATATCCATATAAGAATTCAACAGAGGAACGGCAGGAAGACCCTTACCACTGTCCAAGGGAT
CGCTGATGATTACGATAAAAAGAAACTAGTGAAGGCGTTTAAGAAGAAATTTGCCTGCAATGGTACTGTAATTGAGCATC
CAGAATATGGAGAAGTGATTCAGCTACAGGGTGACCAGCGCAAGAACATATGCCAGTTCCTTGTGGAGATTGGACTGGCT
AAGGACGACCAGCTGAAGGTTCATGGGTTT

ORF - retro_dnov_421 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 100. %
Parental protein coverage: 79.65 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalPAGTEDYIHIRIQQRNGRKTLTTVQGIADDYDKKKLVKAFKKKFACNGTVIEHPEYGEVIQLQGDQRKNI
PAGTEDYIHIRIQQRNGRKTLTTVQGIADDYDKKKLVKAFKKKFACNGTVIEHPEYGEVIQLQGDQRKNI
RetrocopyPAGTEDYIHIRIQQRNGRKTLTTVQGIADDYDKKKLVKAFKKKFACNGTVIEHPEYGEVIQLQGDQRKNI
ParentalCQFLVEIGLAKDDQLKVHGF
CQFLVEIGLAKDDQLKVHGF
RetrocopyCQFLVEIGLAKDDQLKVHGF

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP012922_ascending_colon 1 .17 RPM 129 .71 RPM
SRP012922_cerebellum 2 .34 RPM 132 .66 RPM
SRP012922_heart 2 .78 RPM 152 .68 RPM
SRP012922_kidney 1 .37 RPM 162 .36 RPM
SRP012922_liver 1 .24 RPM 167 .66 RPM
SRP012922_lung 4 .12 RPM 212 .90 RPM
SRP012922_quadricep_muscle 3 .12 RPM 339 .42 RPM
SRP012922_spleen 1 .26 RPM 177 .87 RPM
Dasypus novemcinctus was not studied using ChIP-Seq data.
Dasypus novemcinctus was not studied using EST data.
Dasypus novemcinctus was not studied using FANTOM5 data.
retro_dnov_421 was not experimentally validated.

Retrocopy orthology:
Dasypus novemcinctus 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 24 parental genes, and 117 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000056209 retrocopies
Bos taurus ENSBTAG000000022821 retrocopy
Canis familiaris ENSCAFG000000295844 retrocopies
Callithrix jacchus ENSCJAG000000121206 retrocopies
Cavia porcellus ENSCPOG000000143503 retrocopies
Dasypus novemcinctus ENSDNOG00000007856 11 retrocopies
Dipodomys ordii ENSDORG000000138534 retrocopies
Felis catus ENSFCAG000000244552 retrocopies
Homo sapiens ENSG000001738122 retrocopies
Gorilla gorilla ENSGGOG000000272012 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 ENSRNOG0000003376515 retrocopies
Sorex araneus ENSSARG000000062871 retrocopy
Sarcophilus harrisii ENSSHAG000000057291 retrocopy
Sus scrofa ENSSSCG000000174306 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000000271915 retrocopies
Tursiops truncatus ENSTTRG000000171353 retrocopies



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