RetrogeneDB ID:

retro_dnov_2181

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_53584:554..789(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SRP9
Ensembl ID:ENSDNOG00000013412
Aliases:None
Description:signal recognition particle 9kDa [Source:HGNC Symbol;Acc:11304]


Retrocopy-Parental alignment summary:






>retro_dnov_2181
ATGTCACAGTACCAAACCTGGGAGGAGTTCAGGTATCCCGCCAAGAGGCTCTACCTCACCGACCCAATGAAGGCACCGTG
GTTCTCAAATAAATGCATTCTGATGGAAGTCTGTGTATTAAAGTAACAGATGATTTAGTTTGTTTGGTGTATAGAACAGA
CTAAGCTCAAGATGTAAAGAAGAGTAAAAATTCTATAGTCAACTAATGGGACTTATGGTAGCCAAGGAATCCCAG

ORF - retro_dnov_2181 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.78 %
Parental protein coverage: 91.86 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMPQYQTWEEFSRAAEKLYLADPMKA-RVVLKYRHSDGSLCIKVTDDLVCLVYRTDQAQDVKKIE-KFHSQ
M.QYQTWEEF...A..LYL.DPMKA..VVLK..HSDGSLCIKVTDDLVCLVYRTD.AQDVKK...KF.SQ
RetrocopyMSQYQTWEEFRYPAKRLYLTDPMKA<TVVLK*MHSDGSLCIKVTDDLVCLVYRTD*AQDVKKSK<KFYSQ
ParentalLMRLMVAKESR
LM.LMVAKES.
RetrocopyLMGLMVAKESQ

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 35 .78 RPM
SRP012922_cerebellum 0 .00 RPM 44 .26 RPM
SRP012922_heart 0 .00 RPM 27 .84 RPM
SRP012922_kidney 0 .00 RPM 24 .09 RPM
SRP012922_liver 0 .00 RPM 42 .88 RPM
SRP012922_lung 0 .00 RPM 43 .68 RPM
SRP012922_quadricep_muscle 0 .00 RPM 40 .50 RPM
SRP012922_spleen 0 .00 RPM 29 .53 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_2181 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 5 parental genes, and 10 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000161622 retrocopies
Dasypus novemcinctus ENSDNOG00000013412 3 retrocopies
retro_dnov_1947, retro_dnov_2181 , retro_dnov_742,
Echinops telfairi ENSETEG000000122911 retrocopy
Loxodonta africana ENSLAFG000000040813 retrocopies
Otolemur garnettii ENSOGAG000000017521 retrocopy



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