RetrogeneDB ID:

retro_dnov_2643

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_93820:8025..8359(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSDNOG00000023580
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:POP5
Ensembl ID:ENSDNOG00000012668
Aliases:None
Description:processing of precursor 5, ribonuclease P/MRP subunit (S. cerevisiae) [Source:HGNC Symbol;Acc:17689]


Retrocopy-Parental alignment summary:






>retro_dnov_2643
CGTCCCCATGCGGGACTTTCATGAAGCCAAAGCTTCGTGGGCTTTGCAGTGAGCTCCCTCAGCGCCTACACTGGAATAGT
GCTAACACCATGCCCGACGGAAGTCTGCAGCTTGTGTGGCCAGCGCTTCCCTTCATCACATTCTTGGAAAACAAAGGACG
CCGCTTGCCTTGTTTTTCAACACCTTGCACGGGGGAGGTACAATTAGAACACGTCAGAGGTGCCTGGTTCAGTATCACAG
GAGGCAACTGTTGGTCTTGTTGCAGAACTGCACTGATGCAGGAGAGCAGGAGGCGATCCAGAGAGCTGTCACAAGAAGCT
CTTTGCTAGAGGAG

ORF - retro_dnov_2643 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.91 %
Parental protein coverage: 65.88 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalRVHGTFGAAACSIGFAVRYLNAYTGIVLLRCRKEF-YQLVWSALPFITYLENKGHRYPC-FFNTLHVGGT
R.H..........GFAV..L.AYTGIVL..C..E...QLVW.ALPFIT.LENKG.R.PC.FFNTLH.GGT
RetrocopyRPHAGLS*SQSFVGFAVSSLSAYTGIVLTPCPTEV<LQLVWPALPFITFLENKGRRLPC<FFNTLHGGGT
ParentalIRTCQKFLIQYNRRQLLILLQNCNDEGQREAIQKSVTKSSLLEE
IRT.Q..L.QY.RRQLL.LLQNC.D.G..EAIQ..VT.SSLLEE
RetrocopyIRTRQRCLVQYHRRQLLVLLQNCTDAGEQEAIQRAVTRSSLLEE

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 16 .34 RPM
SRP012922_cerebellum 0 .55 RPM 11 .82 RPM
SRP012922_heart 0 .00 RPM 2 .09 RPM
SRP012922_kidney 0 .00 RPM 7 .12 RPM
SRP012922_liver 0 .00 RPM 5 .42 RPM
SRP012922_lung 0 .00 RPM 12 .68 RPM
SRP012922_quadricep_muscle 0 .00 RPM 0 .87 RPM
SRP012922_spleen 0 .00 RPM 19 .57 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_2643 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 3 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG00000012668 1 retrocopy
retro_dnov_2643 ,
Echinops telfairi ENSETEG000000092831 retrocopy
Tarsius syrichta ENSTSYG000000061381 retrocopy



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