RetrogeneDB ID:

retro_dnov_927

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_122482:2762..3198(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RHOJ
Ensembl ID:ENSDNOG00000001761
Aliases:None
Description:ras homolog family member J [Source:HGNC Symbol;Acc:688]


Retrocopy-Parental alignment summary:






>retro_dnov_927
ATGCTCAAGTGCGTGGTGGTCGGCAACGGGGGCAGTGGGCAAGACGTGCCTACTCATGAGCTATGCCAACGACGCCTTCC
CGGAGGAGTACGTGCCCACCGTCTTCGACCACTACGCAGTTAGCGTCACCGTGGGGGGCAAGCAGTACCTCCTGGGACTC
TATGACACGGCCGGACAGGAAGACTATGACCGTCTGAGGCCTTTATCTTATCCCATGACTGATGTCTTCCTTATATGCTT
CTCTGTGGTAAATCCAGCCTCATTTCAAAACGTGAAGGAGGAGTGGGTACCAGAGCTTAAGGAATATGCACCAAATGTAC
CCTTTTTATTAATAGGAACTCAGATTGATCTCCGAGATGACCCCAAAACTTTAGCAAGACTGAATGATATGAAAGAAAAA
CCTATATGTGTGGAACAAGGACAGAAACTAGCAAAA

ORF - retro_dnov_927 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 76.71 %
Parental protein coverage: 87.35 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMLKCVVVGD-GAVGKTCLLMSYANDAFPEEYVPTVFDHYAVTVTVGGKQHLLGLYDTAGQEDYNQLRPLS
MLKCVVVG..GAVGKTCLLMSYANDAFPEEYVPTVFDHYAV.VTVGGKQ.LLGLYDTAGQEDY..LRPLS
RetrocopyMLKCVVVGN>GAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLS
ParentalYPNTDVFLICFSVVNPASYHNVQEEWVPELKDCMPHVPYVLIGTQXXXXXXXXXXXRLLYMKEKPLTYEH
YP.TDVFLICFSVVNPAS..NV.EEWVPELK...P.VP..LIGTQ...........RL..MKEKP...E.
RetrocopyYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQ
ParentalGVKLAK
G.KLAK
RetrocopyGQKLAK

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 7 .58 RPM 6 .42 RPM
SRP012922_cerebellum 4 .81 RPM 0 .96 RPM
SRP012922_heart 21 .11 RPM 3 .02 RPM
SRP012922_kidney 5 .20 RPM 1 .37 RPM
SRP012922_liver 0 .93 RPM 0 .46 RPM
SRP012922_lung 8 .40 RPM 10 .08 RPM
SRP012922_quadricep_muscle 36 .87 RPM 1 .73 RPM
SRP012922_spleen 13 .39 RPM 4 .35 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_927 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 4 parental genes, and 9 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG00000001761 2 retrocopies
retro_dnov_192, retro_dnov_927 ,
Gorilla gorilla ENSGGOG000000079481 retrocopy
Pan troglodytes ENSPTRG000000064244 retrocopies
Vicugna pacos ENSVPAG000000048592 retrocopies



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