RetrogeneDB ID:

retro_dnov_735

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_103107:5392..5866(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GLO1
Ensembl ID:ENSDNOG00000019598
Aliases:None
Description:glyoxalase I [Source:HGNC Symbol;Acc:4323]


Retrocopy-Parental alignment summary:






>retro_dnov_735
AATGCAGACCTCAGCACCATGGATATTCCATTGCAGCAGACCATGCTAGGAATTAAAGATCTAAGAAGTCATTACACTAG
AATTCTTGGAAGGATGCTAATTGAAATTTAGATTTTCCCACTATGAAATTTTCATTCTATTTCTTGCCTTTGAGGATAAA
AATGACATCCCCAAAGACAAAAATGAAAAGCAGCATGGGTATTCTCCAGAAAAGCCACACTTGAACTGACACACAACTGG
GGCACTGAAGATGATGCAATTCAGACTTTCCACAATGGCAATTCAGACCATTGAGGATTGGCTCAGATTGGAATTGCCCT
TCCTGATATACATGGTACTTGTAAAAGGTTTGAACTGGGAGTCAAATTTGTGAAGAAATCTGATGATGGTAAAATGAAAG
ACCTGGCTTTCATTCAAGATCCAGATGGCTATCTTATTGAAATTGTGAATCCCAACAAAATGATAACTATTATT

ORF - retro_dnov_735 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 72.29 %
Parental protein coverage: 88.46 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalDADPSTKDF-LLQTMLQIKHPKKSLDFYAR-LGMTLIE-KLDFPTMKFSLYFL-AYEDKNDIPKDKNEK-
.AD.ST.D..L.QTML.I...K.....Y.R.LG..LIE..LDFPTMKFS.YFL.A.EDKNDIPKDKNEK.
RetrocopyNADLSTMDIPLQQTMLGI---KDLRSHYTRILGRMLIE<NLDFPTMKFSFYFL<AFEDKNDIPKDKNEK<
ParentalVAWLFSRKATLELTHNWGTEDDATQSYHSGNSDPRGFGHIGIAVPDVHGACKRFEELGVKFVKKPDDGKM
.AW.FSRKATLELTHNWGTEDDA.Q..H.GNSD..G...IGIA.PD.HG.CKRF.ELGVKFVKK.DDGKM
RetrocopyAAWVFSRKATLELTHNWGTEDDAIQTFHNGNSDH*GLAQIGIALPDIHGTCKRF-ELGVKFVKKSDDGKM
ParentalKGLAFIQDPDGYWIEILNPNQMITVI
K.LAFIQDPDGY.IEI.NPN.MIT.I
RetrocopyKDLAFIQDPDGYLIEIVNPNKMITII

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 33 .25 RPM
SRP012922_cerebellum 0 .00 RPM 46 .74 RPM
SRP012922_heart 0 .00 RPM 76 .80 RPM
SRP012922_kidney 0 .00 RPM 47 .09 RPM
SRP012922_liver 0 .00 RPM 71 .99 RPM
SRP012922_lung 0 .00 RPM 22 .60 RPM
SRP012922_quadricep_muscle 0 .00 RPM 98 .31 RPM
SRP012922_spleen 0 .00 RPM 40 .29 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_735 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 12 parental genes, and 20 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000127032 retrocopies
Cavia porcellus ENSCPOG000000100501 retrocopy
Dasypus novemcinctus ENSDNOG00000019598 6 retrocopies
Dipodomys ordii ENSDORG000000063691 retrocopy
Macropus eugenii ENSMEUG000000059781 retrocopy
Mus musculus ENSMUSG000000240261 retrocopy
Otolemur garnettii ENSOGAG000000079452 retrocopies
Rattus norvegicus ENSRNOG000000005412 retrocopies
Sus scrofa ENSSSCG000000277781 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000058211 retrocopy
Tupaia belangeri ENSTBEG000000143861 retrocopy
Tursiops truncatus ENSTTRG000000046641 retrocopy



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