RetrogeneDB ID:

retro_dnov_634

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_7042:13737..13984(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL12
Ensembl ID:ENSDNOG00000008412
Aliases:None
Description:ribosomal protein L12 [Source:HGNC Symbol;Acc:10302]


Retrocopy-Parental alignment summary:






>retro_dnov_634
CAGGCCCGAATTGAGAGGATCCGTGTCCTGAACACCAAAACCCCCCAGGAGCCACCCAGAGACACAACGAAGCAGAAAAA
CATCAAGCACAGTGGAAAGATCACTTTTGATGGGATTGTCGACATTGCCCGAAAGATGTGGCTCCAGTCTTTAGCCAGAG
AACTCTCTCCGAACCATTAAAGAGATCCTGGGGACTGCCCAGTGTGTGGGCTGCAGTGTGGGTGGCTGCCACCCTCGTGG
CATCGTG

ORF - retro_dnov_634 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 63.95 %
Parental protein coverage: 51.52 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalQAQIEVVPSASALIIKALKEPPRDRKKQKNIKHSGNITFDEIVSIARQMRHRSLARELS-GTIKEILGTA
QA.IE.......L..K...EPPRD..KQKNIKHSG.ITFD.IV.IAR.M...SLARELS..TIKEILGTA
RetrocopyQARIERI---RVLNTKTPQEPPRDTTKQKNIKHSGKITFDGIVDIARKMWLQSLARELS>RTIKEILGTA
ParentalQSVGCNVDGRHPHDII
Q.VGC.V.G.HP..I.
RetrocopyQCVGCSVGGCHPRGIV

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 1076 .57 RPM
SRP012922_cerebellum 0 .00 RPM 317 .55 RPM
SRP012922_heart 0 .00 RPM 351 .06 RPM
SRP012922_kidney 0 .00 RPM 857 .53 RPM
SRP012922_liver 0 .00 RPM 424 .48 RPM
SRP012922_lung 0 .00 RPM 1040 .36 RPM
SRP012922_quadricep_muscle 0 .00 RPM 624 .14 RPM
SRP012922_spleen 0 .00 RPM 1918 .94 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_634 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 8 parental genes, and 104 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG00000008412 48 retrocopies
Latimeria chalumnae ENSLACG000000153733 retrocopies
Loxodonta africana ENSLAFG0000001766910 retrocopies
Macropus eugenii ENSMEUG0000000738012 retrocopies
Monodelphis domestica ENSMODG000000045719 retrocopies
Procavia capensis ENSPCAG000000074693 retrocopies
Rattus norvegicus ENSRNOG000000162204 retrocopies
Tursiops truncatus ENSTTRG0000001570015 retrocopies



Copyright © RetrogeneDB 2014-2017