RetrogeneDB ID:

retro_dnov_1274

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_17436:11289..11622(-)
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:ENSDNOG00000024524
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_dnov_1274
CCCAACGTCCTTCTCAGCCGTGCACCAGGGGTTGGAAAAACTACAGTAGGCAAGGAACTTGCATCAAGATCAAGACTGAA
ATGCATTCATGTGGGTGAGTTAGCTACACAAGGGCAACTATATGATGGCTATGATGAAGAGTGTGATGGTCCCATTTTAG
ATGAACATGCAGTAGTTGATGAGTCAGAAAACCAAATGAAGGAAGGTGGCGTTATCGTTGATTACCATGGCTGTGAGTTC
TTCCCTGAATGTTGGTTTCATGCAGTTTTTGTGCTGAGAACAGATAATAGTGTAGTGGATAAAAGACTTGAAACAAGGGG
TTATAATGAAGAA

ORF - retro_dnov_1274 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.28 %
Parental protein coverage: 64.53 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalPNILLTGTPGVGKTTLGKELASRSGLKYVNVGDLAKEGQLYDGYDEEYDCPILDEDRVVDELENQMKEGG
PN.LL...PGVGKTT.GKELASRS.LK...VG.LA..GQLYDGYDEE.D.PILDE..VVDE.ENQMKEGG
RetrocopyPNVLLSRAPGVGKTTVGKELASRSRLKCIHVGELATQGQLYDGYDEECDGPILDEHAVVDESENQMKEGG
ParentalVIVDYHGCDFFPERWFHIVFVLRTDNSVLYKRLETRGYNEK
VIVDYHGC.FFPE.WFH.VFVLRTDNSV..KRLETRGYNE.
RetrocopyVIVDYHGCEFFPECWFHAVFVLRTDNSVVDKRLETRGYNEE

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 .58 RPM 20 .03 RPM
SRP012922_cerebellum 0 .14 RPM 15 .53 RPM
SRP012922_heart 0 .46 RPM 16 .94 RPM
SRP012922_kidney 1 .64 RPM 18 .62 RPM
SRP012922_liver 0 .31 RPM 9 .91 RPM
SRP012922_lung 7 .79 RPM 18 .79 RPM
SRP012922_quadricep_muscle 0 .00 RPM 20 .08 RPM
SRP012922_spleen 1 .26 RPM 23 .69 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_1274 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 17 parental genes, and 67 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000124714 retrocopies
Callithrix jacchus ENSCJAG000000364211 retrocopy
Dasypus novemcinctus ENSDNOG00000024524 3 retrocopies
retro_dnov_1274 , retro_dnov_2010, retro_dnov_398,
Gorilla gorilla ENSGGOG000000155451 retrocopy
Macropus eugenii ENSMEUG0000001602212 retrocopies
Myotis lucifugus ENSMLUG000000289324 retrocopies
Monodelphis domestica ENSMODG0000001942114 retrocopies
Mustela putorius furoENSMPUG000000145881 retrocopy
Mus musculus ENSMUSG000000789412 retrocopies
Nomascus leucogenys ENSNLEG000000040862 retrocopies
Oryctolagus cuniculus ENSOCUG000000209701 retrocopy
Otolemur garnettii ENSOGAG000000277364 retrocopies
Pongo abelii ENSPPYG000000155273 retrocopies
Pan troglodytes ENSPTRG0000001694910 retrocopies
Rattus norvegicus ENSRNOG000000398481 retrocopy
Sarcophilus harrisii ENSSHAG000000172162 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000244482 retrocopies



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