RetrogeneDB ID:

retro_dnov_1239

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_168081:342..753(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSDNOG00000007283
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_dnov_1239
ATCGCAACTCCATTGAAACAGCGGAAAGTTGGTAACATTTGTTCTGCCGTTTGGTCAGAAGACAGCTGCACTCACTCAGC
TGCCATTGCTTTCATTGATTTTAAGAGTGGTAACTGTGCTGTGGTTTACACTGGGAATGGCAATAGAGAAAAGCAAAATC
TGTCTGATTTACTTTTCCCAACCTTAGAAGGAGTCAACAATGTAGAACAGAATGCTTATGAGAATGAAAATGAGGTAATT
TCAACAGATGAAAGTGAGAACTCCTCCAAGTCTCCTGGAAATAAACCAAACAACATAAAGTCAAAAGCTACTCCATGGAC
CTCTTTTCTGCCTCCGTCAGTCCCTATGCCAGGATCAGGACTGGGACCAGCAAAGTCAGGCCTAAACTTCAATGCCCCCC
CCCACTCCCCT

ORF - retro_dnov_1239 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 76.09 %
Parental protein coverage: 50.36 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalITTPLKQWKVGDKCSAIWSEDGCIYPATIASIDFKRDTCVVVYTGYGNREEQNLSDLLFPTFEGVNNVEQ
I.TPLKQ.KVG..CSA.WSED.C...A.IA.IDFK...C.VVYTG.GNRE.QNLSDLLFPT.EGVNNVEQ
RetrocopyIATPLKQRKVGNICSAVWSEDSCTHSAAIAFIDFKSGNCAVVYTGNGNREKQNLSDLLFPTLEGVNNVEQ
ParentalNAQENENESQLSTDESENSSKSPGNKPNNIKSKATTWNSFLPPPPPMPGSGLGPGKSGLKFNGPPPPP
NA.ENENE...STDESENSSKSPGNKPNNIKSKAT.W.SFLPP..PMPGSGLGP.KSGL.FN.....P
RetrocopyNAYENENE-VISTDESENSSKSPGNKPNNIKSKATPWTSFLPPSVPMPGSGLGPAKSGLNFNXXXXSP

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 15 .56 RPM
SRP012922_cerebellum 0 .00 RPM 15 .26 RPM
SRP012922_heart 0 .00 RPM 7 .66 RPM
SRP012922_kidney 0 .00 RPM 8 .76 RPM
SRP012922_liver 0 .00 RPM 5 .88 RPM
SRP012922_lung 0 .00 RPM 11 .61 RPM
SRP012922_quadricep_muscle 0 .00 RPM 6 .40 RPM
SRP012922_spleen 0 .00 RPM 14 .77 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_1239 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 13 parental genes, and 17 retrocopies.

Species Parental gene accession Retrocopies number
Cavia porcellus ENSCPOG000000123281 retrocopy
Dasypus novemcinctus ENSDNOG00000007283 4 retrocopies
Echinops telfairi ENSETEG000000014062 retrocopies
Homo sapiens ENSG000002055711 retrocopy
Gorilla gorilla ENSGGOG000000267041 retrocopy
Myotis lucifugus ENSMLUG000000106031 retrocopy
Macaca mulatta ENSMMUG000000202141 retrocopy
Nomascus leucogenys ENSNLEG000000044541 retrocopy
Oryctolagus cuniculus ENSOCUG000000170971 retrocopy
Pan troglodytes ENSPTRG000000169551 retrocopy
Sus scrofa ENSSSCG000000169701 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000122881 retrocopy
Tupaia belangeri ENSTBEG000000023991 retrocopy



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