RetrogeneDB ID:

retro_dnov_2299

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_62075:3879..4070(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSDNOG00000024365
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:SERP1
Ensembl ID:ENSDNOG00000013995
Aliases:None
Description:stress-associated endoplasmic reticulum protein 1 [Source:HGNC Symbol;Acc:10759]


Retrocopy-Parental alignment summary:






>retro_dnov_2299
GTGGTCGCGGAGCAGGGGATCCCCAGGGCCAAGGAGAAGCAGAGCGAGAGCACCCCCAGCGCGGCGACGTGGCCACGACC
TCGAGAAAAGCCCCGAGAGAAGCAGCTGCGGGACCCTGGTCATTGGCTCTCTTCGTTTTTGTTGTTTGTGACGCTGCAAC
TCCACAGATTATTCAAAGTGTCAGGATGGGC

ORF - retro_dnov_2299 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 60.61 %
Parental protein coverage: 98.48 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMVAKQRIRMANEKHSKNIT-QRGNVAKTSRNAPEEKASVGPWLLALFIFVVCGSAIFQIIQSIRMG
.VA.Q.I..A.EK.S.....QRG.VA.TSR.AP.E.A..GPW.LALF.FVVC..A..QIIQS.RMG
RetrocopyVVAEQGIPRAKEKQSESTP<QRGDVATTSRKAPRE-AAAGPWSLALFVFVVCDAATPQIIQSVRMG

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 43 .76 RPM
SRP012922_cerebellum 0 .00 RPM 11 .96 RPM
SRP012922_heart 0 .00 RPM 2 .78 RPM
SRP012922_kidney 0 .00 RPM 18 .62 RPM
SRP012922_liver 0 .00 RPM 33 .28 RPM
SRP012922_lung 0 .00 RPM 49 .18 RPM
SRP012922_quadricep_muscle 0 .00 RPM 1 .21 RPM
SRP012922_spleen 0 .00 RPM 55 .06 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_2299 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 3 parental genes, and 18 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG00000013995 15 retrocopies
Microcebus murinus ENSMICG000000004141 retrocopy
Oryctolagus cuniculus ENSOCUG000000160852 retrocopies



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