RetrogeneDB ID:

retro_dnov_2529

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_83012:3954..4341(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:TSEN15
Ensembl ID:ENSDNOG00000017611
Aliases:None
Description:tRNA splicing endonuclease 15 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:16791]


Retrocopy-Parental alignment summary:






>retro_dnov_2529
CCTAAGTATTTAGAGATGATGGAATTAGATATTGGAGATTCAACCCAAGTTTATATAGCATTCTTGGTTTGTCTGGACCT
CATGGAGAATAAAATAATCCCCTGTGTGGGATTACCAGAACTGCAGCTCATATGCCTTGGCGGTACTGAGCTGGAAAGAT
AAGAGTTTCTGACTGTAGTGCCTGCTCCTATCAGTGCGTCCCTCAGCCATAACAGGATAAGGGAAATCTTGAAGTCATCC
CAAAAATTGCAAGGTAACCCAGATTTGCCAATGTCTTTTACTTTGGCCATAGTGGAGTCTGATTCCACAATAGTTTATTA
TAAACTTACTAATGGATTTATGCTGCCAGACCCTCAGGTCAGTTTTGAGAATATTTCACTTAGAAGA

ORF - retro_dnov_2529 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.06 %
Parental protein coverage: 76.19 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalPKYLEMMELDIGDATQVYIAFLVYLDLMESKSWHEVNCVGLPELQLICLVGTEIEGEGLQTVVPTPISAS
PKYLEMMELDIGD.TQVYIAFLV.LDLME.K......CVGLPELQLICL.GTE.E.....TVVP.PISAS
RetrocopyPKYLEMMELDIGDSTQVYIAFLVCLDLMENKI---IPCVGLPELQLICLGGTELER*EFLTVVPAPISAS
ParentalLSHNRIREILKASRKLQGDPDLPMSFTLAIVESDSTIVYYKLTDGFMLPDPQ----NISLRR
LSHNRIREILK.S.KLQG.PDLPMSFTLAIVESDSTIVYYKLT.GFMLPDPQ....NISLRR
RetrocopyLSHNRIREILKSSQKLQGNPDLPMSFTLAIVESDSTIVYYKLTNGFMLPDPQVSFENISLRR

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 9 .14 RPM
SRP012922_cerebellum 0 .00 RPM 7 .84 RPM
SRP012922_heart 0 .00 RPM 5 .80 RPM
SRP012922_kidney 0 .00 RPM 7 .12 RPM
SRP012922_liver 0 .00 RPM 4 .18 RPM
SRP012922_lung 0 .15 RPM 7 .79 RPM
SRP012922_quadricep_muscle 0 .17 RPM 3 .63 RPM
SRP012922_spleen 0 .00 RPM 10 .30 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_2529 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 16 parental genes, and 24 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000163691 retrocopy
Callithrix jacchus ENSCJAG000000053561 retrocopy
Dasypus novemcinctus ENSDNOG00000017611 2 retrocopies
retro_dnov_1176, retro_dnov_2529 ,
Homo sapiens ENSG000001988601 retrocopy
Gorilla gorilla ENSGGOG000000158042 retrocopies
Loxodonta africana ENSLAFG000000141091 retrocopy
Macaca mulatta ENSMMUG000000164091 retrocopy
Mustela putorius furoENSMPUG000000117901 retrocopy
Mus musculus ENSMUSG000000149801 retrocopy
Nomascus leucogenys ENSNLEG000000180241 retrocopy
Otolemur garnettii ENSOGAG000000031281 retrocopy
Pongo abelii ENSPPYG000000004214 retrocopies
Pan troglodytes ENSPTRG000000232022 retrocopies
Pteropus vampyrus ENSPVAG000000011031 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000132302 retrocopies
Vicugna pacos ENSVPAG000000029412 retrocopies



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