RetrogeneDB ID:

retro_dnov_2644

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_9387:33364..34136(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:KCNK5
Ensembl ID:ENSDNOG00000024110
Aliases:None
Description:potassium channel, subfamily K, member 5 [Source:HGNC Symbol;Acc:6280]


Retrocopy-Parental alignment summary:






>retro_dnov_2644
GTATTATCCGATGGCACAGGACAGGGTGTGGCCATCACAGGGAACCAGACCTTCCACAACTGGAACTGGCCCCGTCGTTT
TCCAGCCACCGTCAATCACCACCGTTAGCTATGGCAACTTGGCTCCCAAGAAACCCCTGCCGGGCGTCTCTTCTGCATCT
TCTGTGGTCTCTTCGGGCGCTACTCAGCCAGACATGGATCAGTGTCTTGGGCAAGTTCTCCGGGGGACATGCCAAAAGGC
TGAGTCAGCTCCTCACCAAGAGAGGCCTGAGCCTGAGGAAGGCACAGATCATGTGCACAGCCATCTACATCATGCGGGGC
GTCCTGGTCCACCTGGTGATCCACCCTTCGTCTTCATGGTGACCGAGGAGTGGGACTACATTGTGAGCCCCTCCTACTGC
TTTATCACCACCTCCACTACTGGTTTCAGTGACTCTGTGGCTGCTGTGAACCCCACTGATTCTACCACGCCCTTTCCACA
CCTTATTGAATTCTGGATCTATTTGGGGCTGGCCTGGCTGGCCCTCTTTGTCACCTGGAAGGTGAGCGTGTTTGTGGAGG
TCCACAAAGCCATTAAGAAGCTGAGGTGGTGGAAGGAGTCCTTTGAGAGCTCCCCACACTCCAAAAAGGCCCTGCAGCTG
GCAGGGAGTGCAGCCTCCAAGGACATCAACATTTTCAGCTTTCTGTACAAAAAGCAGGAGACCTACAACAACCTCATCAA
GCACATTGGAATGAAGGCCGTGAAGACGAGTGGGGGTGGGGAGATGGTCCCA

ORF - retro_dnov_2644 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 63.64 %
Parental protein coverage: 59.4 %
Number of stop codons detected: 0
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalVVSDAAGQGVAITGNQTFNNWNW-PNAVIFAATVITTI-YGNVA-PKTP--AGRLFCIFYLFGPLCLTWI
V.SD..GQGVAITGNQTF...NW....V.F....ITT..YGN.A.P..P..A..L.....L...L..TWI
RetrocopyVLSDGTGQGVAITGNQTFH--NW>TGPVVFQPPSITTVSYGNLA>PRNPCRASLLHLLWSLRALLSQTWI
ParentalSALGKFFGGRDKRPGQFLTRRGVSSRKAQITCTAIFIVWGVLVHLVV-PPFVFMVTEEWDYIEGLYYSFI
S.LGKF.GG..KR..Q.LT.RG.S.RKAQI.CTAI.I..GVLVHLV..PPFVFMVTEEWDYI....Y.FI
RetrocopySVLGKFSGGHAKRLSQLLTKRGLSLRKAQIMCTAIYIMRGVLVHLVI<PPFVFMVTEEWDYIVSPSYCFI
ParentalTISTIGFGDFVAGVNPDANYHALYRYFVELWIYLGLAWLSLFVNWKVSMFVEVHKAIKKRRRRRKESFES
T.ST.GF.D.VA.VNP............E.WIYLGLAWL.LFV.WKVS.FVEVHKAIKK.R...KESFES
RetrocopyTTSTTGFSDSVAAVNP-TDSTTPFPHLIEFWIYLGLAWLALFVTWKVSVFVEVHKAIKKLRWW-KESFES
ParentalSPHSRKALQVAGGAASKDVNIFGFLSKKEETYNDLIKQIGKKALKT--GGERAP
SPHS.KALQ.AG.AASKD.NIF.FL.KK.ETYN.LIK.IG.KA.KT..GGE..P
RetrocopySPHSKKALQLAGSAASKDINIFSFLYKKQETYNNLIKHIGMKAVKTSGGGEMVP

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

(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 19 .84 RPM
SRP012922_cerebellum 0 .00 RPM 0 .55 RPM
SRP012922_heart 0 .00 RPM 0 .00 RPM
SRP012922_kidney 0 .00 RPM 25 .46 RPM
SRP012922_liver 0 .00 RPM 13 .62 RPM
SRP012922_lung 0 .00 RPM 1 .99 RPM
SRP012922_quadricep_muscle 0 .00 RPM 0 .00 RPM
SRP012922_spleen 0 .00 RPM 4 .81 RPM

ChIP-Seq - click to see more details

Dasypus novemcinctus was not studied using ChIP-Seq data.

EST - click to see more details

Dasypus novemcinctus was not studied using EST data.

TSS - click to see more details

Dasypus novemcinctus was not studied using FANTOM5 data.

Lab - click to see more details

retro_dnov_2644 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 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG00000024110 1 retrocopy
retro_dnov_2644 ,


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