RetrogeneDB ID:

retro_dnov_2648

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_94081:5315..5667(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SRSF9
Ensembl ID:ENSDNOG00000012598
Aliases:None
Description:serine/arginine-rich splicing factor 9 [Source:HGNC Symbol;Acc:10791]


Retrocopy-Parental alignment summary:






>retro_dnov_2648
CGTGTCGGGCGCACCCACGAGATCAGCTCAAGCCCCCGCAGGGCCTCGTGCCCTCCACCTCCGTGCACTTGGAGGACCCC
CGAGGTGCCGAGGGGACCGTGTATGGAAGGGGGGCTATGATTACAGCCAGGGTCGGCTTCGTGGGGAGTTTCCCAGGACA
CAGGGAGGTGGGGTGCATGGCCTGTGGGGGGGAATGGGCCTCCCACAAGAGGATCTGGTTCCAAGTTCTTGTTGCAGGAC
TTCCTCCTTGAGGCAGCTGGCAGGACCTCCACCTGCGGGAGACTGGGGATGCCTGTTACGCAGATGTGCAGGAGGATGGA
ATCGGATGGTTGAATAGCTCAGGAAAGAAGAG

ORF - retro_dnov_2648 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.57 %
Parental protein coverage: 55.2 %
Number of stop codons detected: 2
Number of frameshifts detected 5


Retrocopy - Parental Gene Alignment:

ParentalKYGRIREI-ELKNRHGLVPFAFVRFEDPRDAEDAIYGRN-GYDYGQCRLRVEFPRTYGGR-GGWPRGGRN
..GR..EI..LK...GLVP...V..EDPR.AE...YGR..GYDY.Q.RLR.EFPRT.GG..G.WP.GG.N
RetrocopyRVGRTHEI<QLKPPQGLVPSTSVHLEDPRGAEGTVYGRG<GYDYSQGRLRGEFPRTQGGG<GAWPVGG-N
ParentalGPPTRRSD-FRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQKDGMG-MVEYLRKED
GPPTR.S..F.VLV.GLPP.GSWQDL..H.RE.GD.CYADVQ.DG.G.MVE.LRKE.
RetrocopyGPPTRGSG<FQVLVAGLPP*GSWQDL--HLRETGDACYADVQEDGIG<MVE*LRKEE

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 .00 RPM 69 .81 RPM
SRP012922_cerebellum 0 .00 RPM 40 .97 RPM
SRP012922_heart 0 .00 RPM 7 .43 RPM
SRP012922_kidney 0 .00 RPM 58 .32 RPM
SRP012922_liver 0 .00 RPM 39 .63 RPM
SRP012922_lung 0 .00 RPM 49 .02 RPM
SRP012922_quadricep_muscle 0 .00 RPM 4 .50 RPM
SRP012922_spleen 0 .00 RPM 48 .30 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_2648 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 16 parental genes, and 29 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000127921 retrocopy
Choloepus hoffmanni ENSCHOG000000092411 retrocopy
Callithrix jacchus ENSCJAG000000011871 retrocopy
Dasypus novemcinctus ENSDNOG000000004219 retrocopies
Dasypus novemcinctus ENSDNOG000000078212 retrocopies
Dasypus novemcinctus ENSDNOG00000012598 2 retrocopies
retro_dnov_1555, retro_dnov_2648 ,
Homo sapiens ENSG000001117861 retrocopy
Macaca mulatta ENSMMUG000000164941 retrocopy
Nomascus leucogenys ENSNLEG000000156611 retrocopy
Otolemur garnettii ENSOGAG000000038521 retrocopy
Ochotona princeps ENSOPRG000000042341 retrocopy
Pongo abelii ENSPPYG000000050311 retrocopy
Sarcophilus harrisii ENSSHAG000000056851 retrocopy
Sus scrofa ENSSSCG000000099061 retrocopy
Tupaia belangeri ENSTBEG000000084991 retrocopy
Tarsius syrichta ENSTSYG000000068484 retrocopies



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