RetrogeneDB ID:

retro_dnov_46

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_36882:54387..55047(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSDNOG00000014222
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSDNOG00000007885
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_dnov_46
ATGGCGATTTTTAGTGTGTTTGTGGTGAACAAAGCTGGCGGCCTAATTTACCAGTTGGACAGCTACACACCTCGAGCTGA
GGCTGAAAAAACTTTCAGTTTCCCGCTCGATCTCCTGCTCAAGCTGCACGACGAGCGTGTGCTGGTTGCCTTCGGCCAGC
GCGATGGCCTCCGGGTGGGCCACGCAGTGCTGGCCATCAATGGCATGGATGTGAACGGCAAGTACACGGCAGACGGGAAA
GAGGTGCTGGAGTACCTGGGCAACCCTGCGAATTATCCGGTGTCCATTCGATTCGGCCGGCCCCGCCTCACCTCCAATGA
GAAACTCATGCTAGCCTCCATGTTCCACTCGCTCTTTGCCATTGGCTCCCAGCTGTCTCCTGAACAGGGCAGCTCAGGCA
TTGAGATGCTAGAGACAGATACATTCAAACTGCACTGCTTCCAGACGCTGACAGGGATCAAGTTTGTGGTGCTGGCAGAC
CCTAGGCAAGCTGGAATCGATTCCCTTCTCCGAAAGATTTATGAAATTTATTCAGACTTTGCCCTCAAGAATCCATTCTA
CTCCCTGGAAATGCCTATCAGGTGTGAGCTGTTTGACCAGAACCTGAAGCTAGCCCTGGAGGTGGCAGAGAAGGCTGGGA
CTTTTGGACCTGGATCATAG

ORF - retro_dnov_46 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 99.09 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAIFSVFVVNKAGGLIYQLDSYSPRAEAEKTFSFPLDLLLKLHDERVLVAFGQRDGIRVGHAVLAINGMD
MAIFSVFVVNKAGGLIYQLDSY.PRAEAEKTFSFPLDLLLKLHDERVLVAFGQRDG.RVGHAVLAINGMD
RetrocopyMAIFSVFVVNKAGGLIYQLDSYTPRAEAEKTFSFPLDLLLKLHDERVLVAFGQRDGLRVGHAVLAINGMD
ParentalVNGKYTADGKEVLEYLGNPANYPVSIRFGRPRLTSNEKLMLASMFHSLFAIGSQLSPEQGSSGIEMLETD
VNGKYTADGKEVLEYLGNPANYPVSIRFGRPRLTSNEKLMLASMFHSLFAIGSQLSPEQGSSGIEMLETD
RetrocopyVNGKYTADGKEVLEYLGNPANYPVSIRFGRPRLTSNEKLMLASMFHSLFAIGSQLSPEQGSSGIEMLETD
ParentalTFKLHCFQTLTGIKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNLKLALEVAE
TFKLHCFQTLTGIKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNLKLALEVAE
RetrocopyTFKLHCFQTLTGIKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNLKLALEVAE
ParentalKAGTFGPGS
KAGTFGPGS
RetrocopyKAGTFGPGS

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 .58 RPM 166 .85 RPM
SRP012922_cerebellum 0 .00 RPM 39 .04 RPM
SRP012922_heart 0 .23 RPM 39 .91 RPM
SRP012922_kidney 0 .27 RPM 135 .25 RPM
SRP012922_liver 0 .15 RPM 117 .65 RPM
SRP012922_lung 0 .31 RPM 133 .94 RPM
SRP012922_quadricep_muscle 0 .17 RPM 39 .81 RPM
SRP012922_spleen 0 .34 RPM 117 .21 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_46 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 5 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000123831 retrocopy
Callithrix jacchus ENSCJAG000000137031 retrocopy
Dasypus novemcinctus ENSDNOG00000007885 1 retrocopy
retro_dnov_46 ,
Myotis lucifugus ENSMLUG000000047591 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000143401 retrocopy



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