RetrogeneDB ID:

retro_dnov_2247

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_58145:4290..4617(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DNAJC24
Ensembl ID:ENSDNOG00000013512
Aliases:None
Description:DnaJ (Hsp40) homolog, subfamily C, member 24 [Source:HGNC Symbol;Acc:26979]


Retrocopy-Parental alignment summary:






>retro_dnov_2247
AGACAAAGTGCAGACGTGCCAGCAGGAGCAATAGAGGAATGCATACAGAATTTCACCAGAATTGATCAAGCATGGGAAAT
TCTAGGGAATGAAGAGACAAAAAAAAAAGAGTATGACCTGCAGCGGCATGAAGATGATCTAAGAAATATGGGGCCAATAG
ATGCACAAGTGTATCTTGAGGAATTGCCCTGGAATGAAGACGATCACTCTTTTTCTCTGAGTTGCCGATGTGGAGGAAAA
TACAGTGTTTCCAAGGATGAAGCAGAAGAAATTAACCTGATTTCTTGTGATACATGTTCACGAGTTATAGAACTCCTTCA
TCATTGC

ORF - retro_dnov_2247 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.82 %
Parental protein coverage: 96.43 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalKQSTDVPAGAVEECIQKFIEIDQAWKILGNEETKK-EYDLQRHEDNLRNRGAIDAQVCLEDLSWNEDDDS
.QS.DVPAGA.EECIQ.F..IDQAW.ILGNEE....EYDLQRHED.LRN.G.IDAQV.LE.L.WNEDD.S
RetrocopyRQSADVPAGAIEECIQNFTRIDQAWEILGNEEXXXXEYDLQRHEDDLRNMGPIDAQVYLEELPWNEDDHS
ParentalFSLSCRCGGKYSVSKDEAEEVNLISCDTCSLIIELLHYC
FSLSCRCGGKYSVSKDEAEE.NLISCDTCS..IELLH.C
RetrocopyFSLSCRCGGKYSVSKDEAEEINLISCDTCSRVIELLHHC

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 2 .53 RPM
SRP012922_cerebellum 0 .00 RPM 1 .79 RPM
SRP012922_heart 0 .00 RPM 0 .70 RPM
SRP012922_kidney 0 .00 RPM 1 .10 RPM
SRP012922_liver 0 .00 RPM 1 .08 RPM
SRP012922_lung 0 .00 RPM 1 .83 RPM
SRP012922_quadricep_muscle 0 .00 RPM 1 .38 RPM
SRP012922_spleen 0 .00 RPM 2 .52 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_2247 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 11 parental genes, and 16 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG00000013512 1 retrocopy
retro_dnov_2247 ,
Dipodomys ordii ENSDORG000000002483 retrocopies
Echinops telfairi ENSETEG000000030541 retrocopy
Microcebus murinus ENSMICG000000075533 retrocopies
Macaca mulatta ENSMMUG000000068451 retrocopy
Nomascus leucogenys ENSNLEG000000178781 retrocopy
Otolemur garnettii ENSOGAG000000078481 retrocopy
Ochotona princeps ENSOPRG000000016381 retrocopy
Pongo abelii ENSPPYG000000033902 retrocopies
Pan troglodytes ENSPTRG000000034711 retrocopy
Tarsius syrichta ENSTSYG000000092431 retrocopy



Copyright © RetrogeneDB 2014-2017