RetrogeneDB ID:

retro_dnov_258

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_3080:124848..125559(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SETD8
Ensembl ID:ENSDNOG00000010371
Aliases:None
Description:SET domain containing (lysine methyltransferase) 8 [Source:HGNC Symbol;Acc:29489]


Retrocopy-Parental alignment summary:






>retro_dnov_258
CTGCAGGAAGAGACCTCAGTCCCACATCAGGAAGTCAAATGCCAGGGAAACCAGTAGCTGGAATTTACAGGGGGGTGGAA
GAGAACAGAAACTCTGGCAATGCAACACGGAGCAACATGAAGTCCCGAGAGCAGATCAGGGACGCCAGGAGAGGTCTCCT
GGCACCTTTTCCAAACCCAAAATCTGAAGCAGCAGAACCTCCAAAACTCCCACCGCGTCTTGGGATCCCACCAACGCAGC
TGTCACCAAGCAAACTGAAAAAGCCTGTCCAGGGCAAACAAGCCCCTCCAAATAAGCTCGCAGGGATACTCAACAAGGCA
AACTCCCTGTCCAGCAGAGCTCCAGGAAGAGCGAGGCTGAGCTGCAGGCTGAAGAAGGGACGAGAATAGACGAGTTGGTG
GGAAGTGGGAAGGAGGCAGGAATGAGGATTGGTCTCATCGGTGGCGAGGGCAGGGGAGTTATTGACAACCAAGCTGCTCT
CCAGGGCGAGTTTGTGGTGAAATACCACGGGGACCTCATCGAGATCACTGACGCCAAGAAGTGGGGGGCACTGTGTGCAC
AAGACCCCCCCAGAAGCTGCTACATGGACTATTTTCAGCATCTTGAACAAAACTACTGTGCAGATGAAGCTAGAGAGACG
AATCACCTGGGAAGACTGGTCAACCCAGCAAATGTGGGACCTGCCAGGCCCAGCTGCGCGGCCCTGGAGGC

ORF - retro_dnov_258 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 61.29 %
Parental protein coverage: 69.8 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalLQEENSVAHHEVKCQG-KPIAGIYRRREEKRNTGNAARSTMKSEEQKLKDARRGPLAPFPNQKSEAAEPP
LQEE.SV.H.EVKCQG.KP.AGIYR..EE.RN.GNA.RS.MKS.EQ...DARRG.LAPFPN.KSEAAEPP
RetrocopyLQEETSVPHQEVKCQG<KPVAGIYRGVEENRNSGNATRSNMKSREQ-IRDARRGLLAPFPNPKSEAAEPP
ParentalK-TPTSSCDSANTAVTKQTLKKPGKGKQAPRKKGQGKTQQNRKLTDFYPVRRSSRKSKAELQSEERKRID
K.TPT.S.D..N.AVTKQT..K...G...P.K.....TQQ..KL......R.S.....AE....E..RID
RetrocopyK<TPTASWDPTNAAVTKQT-EKACPGQTSPSK*ARRDTQQG-KLPVQQSSRKSEAELQAE----EGTRID
ParentalELIESGKEEGMKIDLIDGKGRGVIATKQFSRGEFVVEYHGDLIEITDAKKREALYAQDPSTGCYMYYFQY
EL..SGKE.GM.I.LI.G.GRGVI.......GEFVV.YHGDLIEITDAKK..AL.AQDP...CYM.YFQ.
RetrocopyELVGSGKEAGMRIGLIGGEGRGVIDNQAALQGEFVVKYHGDLIEITDAKKWGALCAQDPPRSCYMDYFQH
ParentalLSKTYCVDATRETNRLGRLIN-HSKCGNCQTKLHDIGG
L...YC.D..RETN.LGRL.N..SKCG.CQ..L...GG
RetrocopyLEQNYCADEARETNHLGRLVN<PSKCGTCQAQLRGPGG

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 91 .21 RPM
SRP012922_cerebellum 0 .00 RPM 25 .84 RPM
SRP012922_heart 0 .00 RPM 20 .88 RPM
SRP012922_kidney 0 .00 RPM 24 .64 RPM
SRP012922_liver 0 .00 RPM 20 .28 RPM
SRP012922_lung 0 .00 RPM 74 .53 RPM
SRP012922_quadricep_muscle 0 .00 RPM 30 .29 RPM
SRP012922_spleen 0 .00 RPM 89 .51 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_258 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 3 parental genes, and 7 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG00000010371 1 retrocopy
retro_dnov_258 ,
Rattus norvegicus ENSRNOG000000010624 retrocopies
Sarcophilus harrisii ENSSHAG000000153762 retrocopies



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