RetrogeneDB ID:

retro_dnov_1031

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_13811:34512..34872(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS15A
Ensembl ID:ENSDNOG00000008341
Aliases:None
Description:ribosomal protein S15a [Source:HGNC Symbol;Acc:10389]


Retrocopy-Parental alignment summary:






>retro_dnov_1031
GCTCTTAAGAGCATCAACAATGCTGAGAAGAGAGGCAAACGCCAGGTTCTAATCAGGCCGTGCTCCAAAGTCATCGTCAG
GTTTCTAACTGTGATGATGAAGCATGGTTATGTTGGTGAGTTTGAAATCATTGATGATCACAGAGCTGGGAAAATTGTTG
TGACCCTCACAGGGAGGTTAAACAAGTGTAGAGTGATTAGTCCCAGATTTGATGTGCAACTCAAAAATCTAGAAAAATGG
CAGAATAATCTGCTCCCATCCTGTCAGTTTGGTTTCACTGTATTGACCTCAGCTGGCGTTATGGACCACAAGGAAGCAAG
GCGAAAACACACAGGAGGAAAAATCCTGGGATTCTTTTTC

ORF - retro_dnov_1031 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 92.56 %
Parental protein coverage: 93.08 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalALKSINNAEKRGKRQVLIRPCSKVIVRFLTVMMKHGYIGEFEIIDDHRAGKIVVNLTGRLNKCGVISPRF
ALKSINNAEKRGKRQVLIRPCSKVIVRFLTVMMKHGY.GEFEIIDDHRAGKIVV.LTGRLNKC.VISPRF
RetrocopyALKSINNAEKRGKRQVLIRPCSKVIVRFLTVMMKHGYVGEFEIIDDHRAGKIVVTLTGRLNKCRVISPRF
ParentalDVQLKDLEKWQNNLLPSRQFGFIVLTTSAGIMDHEEARRKHTGGKILGFFF
DVQLK.LEKWQNNLLPS.QFGF.VL.TSAG.MDH.EARRKHTGGKILGFFF
RetrocopyDVQLKNLEKWQNNLLPSCQFGFTVL-TSAGVMDHKEARRKHTGGKILGFFF

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 146 .24 RPM
SRP012922_cerebellum 0 .14 RPM 57 .32 RPM
SRP012922_heart 0 .23 RPM 78 .19 RPM
SRP012922_kidney 0 .00 RPM 165 .10 RPM
SRP012922_liver 0 .15 RPM 76 .32 RPM
SRP012922_lung 0 .46 RPM 224 .05 RPM
SRP012922_quadricep_muscle 0 .00 RPM 94 .16 RPM
SRP012922_spleen 0 .11 RPM 232 .70 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_1031 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 21 parental genes, and 288 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000001108318 retrocopies
Bos taurus ENSBTAG000000207335 retrocopies
Callithrix jacchus ENSCJAG000000200716 retrocopies
Cavia porcellus ENSCPOG0000002169512 retrocopies
Dasypus novemcinctus ENSDNOG00000008341 45 retrocopies
Dipodomys ordii ENSDORG000000015575 retrocopies
Equus caballus ENSECAG000000192932 retrocopies
Homo sapiens ENSG0000013441937 retrocopies
Gorilla gorilla ENSGGOG0000002629932 retrocopies
Gadus morhua ENSGMOG000000058621 retrocopy
Latimeria chalumnae ENSLACG000000114761 retrocopy
Loxodonta africana ENSLAFG0000002699613 retrocopies
Microcebus murinus ENSMICG0000001224120 retrocopies
Macaca mulatta ENSMMUG000000055933 retrocopies
Oryctolagus cuniculus ENSOCUG0000000017925 retrocopies
Otolemur garnettii ENSOGAG0000001319914 retrocopies
Pongo abelii ENSPPYG000000071392 retrocopies
Pan troglodytes ENSPTRG000000078232 retrocopies
Pteropus vampyrus ENSPVAG0000000290114 retrocopies
Rattus norvegicus ENSRNOG000000183205 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000002522226 retrocopies



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