RetrogeneDB ID:

retro_dnov_2076

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_46025:10336..10599(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RBM3
Ensembl ID:ENSDNOG00000010420
Aliases:None
Description:RNA binding motif (RNP1, RRM) protein 3 [Source:HGNC Symbol;Acc:9900]


Retrocopy-Parental alignment summary:






>retro_dnov_2076
GGAGAGTCCCTGGACGGCTGCTAGATGCATGTGGACCACACAGGCAAGGCAGCCCGGGGAACCAAAGGGCGTGCACTTGG
GGGCCGTGAGCATGGCCGCAGCTACTGTAGAGGTGTTGGGGACAAGGGATAGGGGAGCAGCCAGCCTGACAGTCGCCTTG
AGGATAGAGATATGGATACGGACGCTCTAGAGACAATGGTGGCAGAAGCTAGGGAAGTTACAACTGCAACTCTGTAAGGA
ATTATAGAAACGATTTCAATGAT

ORF - retro_dnov_2076 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 59.55 %
Parental protein coverage: 73.95 %
Number of stop codons detected: 5
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalGESLDGRQIRVDHAGKSARGTRGGAFGGHGRGRSYSRGGGDQGYGSSRYDSR-PGGYGYGYGRSRDYGGR
GESLDG....VDH.GK.ARGT.G.A.GG...GRSY.RG.GD.G.GSS..DSR.P.G..YGYGRSRD.GGR
RetrocopyGESLDGC*MHVDHTGKAARGTKGRALGGREHGRSYCRGVGDKG*GSSQPDSR<P*G*RYGYGRSRDNGGR
ParentalNQGGYDRYSGGNYRDNYDN
..G.Y...S..NYR.....
RetrocopyS*GSYNCNSVRNYRNDFND

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 0 .19 RPM 56 .40 RPM
SRP012922_cerebellum 0 .00 RPM 29 .42 RPM
SRP012922_heart 0 .23 RPM 22 .28 RPM
SRP012922_kidney 0 .00 RPM 38 .06 RPM
SRP012922_liver 0 .00 RPM 23 .53 RPM
SRP012922_lung 0 .61 RPM 50 .86 RPM
SRP012922_quadricep_muscle 0 .00 RPM 14 .02 RPM
SRP012922_spleen 0 .00 RPM 71 .19 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_2076 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 11 parental genes, and 29 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000137181 retrocopy
Bos taurus ENSBTAG000000258481 retrocopy
Canis familiaris ENSCAFG000000154852 retrocopies
Cavia porcellus ENSCPOG000000035531 retrocopy
Dasypus novemcinctus ENSDNOG00000010420 16 retrocopies
Dasypus novemcinctus ENSDNOG000000171993 retrocopies
Gadus morhua ENSGMOG000000121371 retrocopy
Loxodonta africana ENSLAFG000000070031 retrocopy
Pongo abelii ENSPPYG000000203141 retrocopy
Sus scrofa ENSSSCG000000215911 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000274931 retrocopy



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