RetrogeneDB ID:

retro_dnov_999

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_132473:3476..4163(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SLC2A1
Ensembl ID:ENSDNOG00000015043
Aliases:None
Description:solute carrier family 2 (facilitated glucose transporter), member 1 [Source:HGNC Symbol;Acc:11005]


Retrocopy-Parental alignment summary:






>retro_dnov_999
CTGGTCATGGGCCACTTGGTTATTGGCCTCTTATTTGGATTCTGTACAGATTTTATGTCTATGTACATTGGAGAGATATC
GCCCTCTACCTTATGGGTTGCCACGAGCACTCTTAATGAGCCAGGTATCATCATTGGGATTCTGGTGGCCCAGATCTATG
GTCTGGAAATCATCATGTGATCTGGAGAACTGTGACCTGTGCTATTAGTCTTCATCATTATTCCAGATGTCTTGCAGAGT
GTAGCCATTCAATTTTTCCCTGAAAGTCACAGATTCTTGCTCATTAATAGAAAGGAAGAAGAGTATGCCAAGCAGGTCCT
CCAGCAATTTGGAGGCATTCAGGATGTGAGCAATGACATGCAGAAGATGAAAGGTGAGATTGATAACATTTCATAAGAAA
AGAAAGCCAATATGCTGGAGCTCTTTAAAACACCCAGCTACCAGTGGCCTATCATCATTTTCACCATGCTGCAGCTATCT
CAGCAGTTCTCTAGAATCAGTGCTGTGTTTTATTACTCTCCAGGAATCTTCAGACATGTAGATGTTGAAGAAACATTCTA
TGCCATTATTGGTGCCAGTGTGATCAATACAAGCTTCACTGTGATTTCACTGTTTCTTGTGGAAAACGCAGGAAAAAAGC
CTCTACATATGCTAAGCATTGGAGGGATGGCTCTTTGTTCCAGTCTC

ORF - retro_dnov_999 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 50.66 %
Parental protein coverage: 50.55 %
Number of stop codons detected: 3
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalLILGRFIIGVYCGLTTGFVPMYVGEVSPTALRGALGTLHQLGIVVGILIAQIFGLDSIMGNEDLWPLLLS
L..G...IG...G..T.F..MY.GE.SP..L..A..TL...GI..GIL.AQI.GL..IM....L.P.LL.
RetrocopyLVMGHLVIGLLFGFCTDFMSMYIGEISPSTLWVATSTLNEPGIIIGILVAQIYGLEIIM*SGEL*PVLLV
ParentalIIFIPALLQCILLPLCPESPRFLLINRNEENQAKSVLKKLRGTQDVSHDLQEMKEESRQMMREKKVTILE
.I.IP..LQ.......PES.RFLLINR.EE..AK.VL....G.QDVS.D.Q.MK.E......EKK...LE
RetrocopyFIIIPDVLQSVAIQFFPESHRFLLINRKEEEYAKQVLQQFGGIQDVSNDMQKMKGEIDNIS*EKKANMLE
ParentalLFRSPIYRQPILIAVVLQLSQQLSGINAVFYYSTSIFEKAGVQQPVYATIGSGIVNTAFTVVSLFVVERA
LF..P.Y..PI.I...LQLSQQ.S.I.AVFYYS..IF....V....YA.IG....NT.FTV.SLF.VE.A
RetrocopyLFKTPSYQWPIIIFTMLQLSQQFSRISAVFYYSPGIFRHVDVEETFYAIIGASVINTSFTVISLFLVENA
ParentalGRRTLHLIGLAGMAGCAVL
G...LH.....GMA.C..L
RetrocopyGKKPLHMLSIGGMALCSSL

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 21 .78 RPM
SRP012922_cerebellum 0 .00 RPM 29 .14 RPM
SRP012922_heart 0 .00 RPM 4 .87 RPM
SRP012922_kidney 0 .00 RPM 3 .83 RPM
SRP012922_liver 0 .00 RPM 0 .15 RPM
SRP012922_lung 0 .00 RPM 5 .96 RPM
SRP012922_quadricep_muscle 0 .00 RPM 1 .21 RPM
SRP012922_spleen 0 .00 RPM 1 .14 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_999 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 2 parental genes, and 2 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG00000015043 1 retrocopy
retro_dnov_999 ,
Ictidomys tridecemlineatus ENSSTOG000000218611 retrocopy



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