RetrogeneDB ID:

retro_dnov_1205

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_16252:51669..52036(+)
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:ENSDNOG00000017128
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_dnov_1205
TCTTACTACTTAGACTGTGATGATGTGGTTTTGAGGAACTTTACCAAATATTTTCTTCACCAATCTCATGAGATGGAACA
TGCTGAGAAACTATGAATCTGCAGAACCAAGGAGGTGGCATAATCTTTCTTCAGGATACCAAGAAAATAGAACTGGATTA
CTGGGAGATTGGAATGAACTTAATGGAATGTTCACCACATCTGGAAAAAAGGATGAATCAGTCACTGCTGGAACTCCACA
AACTGGCCACTGAAAAAAGCGACTCCCACTTGTGTGAATCATTGAGACCAGTTACCTGAATGAGCAAGTAAAACCCTTCA
AAGAATTGGGTGACTACATAACCAATCCGTGCAAGATGGAGGCCCCT

ORF - retro_dnov_1205 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.02 %
Parental protein coverage: 86.11 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalSYYFDRDDVALKNFAKYFLHQSHEEREHAEKL-MKLQNQRGGRIFLQDIKKPERDDWESGLNAMECALHL
SYY.D.DDV.L.NF.KYFLHQSHE..EHAEKL.M.LQNQ.GG.IFLQD.KK.E.D.WE.G.N.MEC..HL
RetrocopySYYLDCDDVVLRNFTKYFLHQSHE-MEHAEKL<MNLQNQGGGIIFLQDTKKIELDYWEIGMNLMECSPHL
ParentalEKRVNQSLLELHKLATDKNDPHLCD-FIETHYLNEQVKSIKELGDYVTNLRKMGAP
EKR.NQSLLELHKLAT.K.D.HLC...IET.YLNEQVK..KELGDY.TN..KM.AP
RetrocopyEKRMNQSLLELHKLATEKSDSHLCE<IIETSYLNEQVKPFKELGDYITNPCKMEAP

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 567 .85 RPM
SRP012922_cerebellum 0 .00 RPM 303 .39 RPM
SRP012922_heart 0 .00 RPM 263 .36 RPM
SRP012922_kidney 0 .00 RPM 890 .66 RPM
SRP012922_liver 0 .00 RPM 543 .68 RPM
SRP012922_lung 0 .00 RPM 953 .15 RPM
SRP012922_quadricep_muscle 0 .00 RPM 198 .18 RPM
SRP012922_spleen 0 .00 RPM 1034 .61 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_1205 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 32 parental genes, and 355 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000168311 retrocopy
Bos taurus ENSBTAG0000001118410 retrocopies
Canis familiaris ENSCAFG000000159011 retrocopy
Callithrix jacchus ENSCJAG0000001908916 retrocopies
Cavia porcellus ENSCPOG000000265863 retrocopies
Dasypus novemcinctus ENSDNOG000000024559 retrocopies
Dasypus novemcinctus ENSDNOG000000041265 retrocopies
Dasypus novemcinctus ENSDNOG0000000557736 retrocopies
Dasypus novemcinctus ENSDNOG000000078482 retrocopies
Dasypus novemcinctus ENSDNOG000000166838 retrocopies
Dasypus novemcinctus ENSDNOG00000017128 83 retrocopies
Felis catus ENSFCAG000000073821 retrocopy
Homo sapiens ENSG0000016799620 retrocopies
Gorilla gorilla ENSGGOG000000277227 retrocopies
Latimeria chalumnae ENSLACG000000174261 retrocopy
Loxodonta africana ENSLAFG0000000482412 retrocopies
Microcebus murinus ENSMICG000000058516 retrocopies
Myotis lucifugus ENSMLUG0000002572616 retrocopies
Monodelphis domestica ENSMODG000000075829 retrocopies
Mustela putorius furoENSMPUG000000140303 retrocopies
Mus musculus ENSMUSG000000246614 retrocopies
Nomascus leucogenys ENSNLEG0000000332129 retrocopies
Oryctolagus cuniculus ENSOCUG000000141084 retrocopies
Otolemur garnettii ENSOGAG000000253549 retrocopies
Ochotona princeps ENSOPRG000000107347 retrocopies
Procavia capensis ENSPCAG0000001037713 retrocopies
Pongo abelii ENSPPYG0000000317312 retrocopies
Pteropus vampyrus ENSPVAG000000130383 retrocopies
Rattus norvegicus ENSRNOG000000226199 retrocopies
Sus scrofa ENSSSCG000000145409 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000145211 retrocopy
Vicugna pacos ENSVPAG000000039566 retrocopies



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