RetrogeneDB ID:

retro_dnov_2381

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:scaffold_6913:47297..47689(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:STMN2
Ensembl ID:ENSDNOG00000003373
Aliases:None
Description:stathmin-like 2 [Source:HGNC Symbol;Acc:10577]


Retrocopy-Parental alignment summary:






>retro_dnov_2381
GATATCCACGTGAAAGAACTGGAGGAGCGTACCTCAGGCCAGGCCTTTGAGCTGATAATCAACCCTAGGTCAAAAGAATC
TATCCCAGAATAGCCCCTTTTCCCTACAAAGAAGAATCTTTCCCTGGAGGAAATTCAAAAGAAGTTAGAAGTTGCAGGAG
AAAGATGCAAACCCCATGAAGCTGAGGTCTTGAAGCAGCTTGCAGAGAAACAAGAGCATGAGAACGAAGTGCTTCAGAAA
GCAATAGAAGAAAACAACAACTTCAGTAAAATAGTGGAAGAGAAATTGACCCACCAAATGGAAACCGAGAACTGAGAGGC
ACAAATGCTGCTAAACTGGAGTGCTTGCGAGAAAAGAATAACTATATTGAAGAAGTACGGAAAAACAAAGAA

ORF - retro_dnov_2381 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 61.48 %
Parental protein coverage: 74.86 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalDMEVKQINKRASGQAFELILKPPSPISEAPRTLASPKKKDLSLEEIQKKLEAAEERRKSQEAQVLKQLAE
D..VK....R.SGQAFELI..P.S..S..P.....P.KK.LSLEEIQKKLE.A.ER.K..EA.VLKQLAE
RetrocopyDIHVKELEERTSGQAFELIINPRSKES-IPE*PLFPTKKNLSLEEIQKKLEVAGERCKPHEAEVLKQLAE
ParentalKREHEREVLQKALEENNNFSKMAEEKLILKMEQIKENREANL-AAIIERLQEKERHAAEVRRNKE
K.EHE.EVLQKA.EENNNFSK..EEKL...ME...EN.EA...AA..E.L.EK.....EVR.NKE
RetrocopyKQEHENEVLQKAIEENNNFSKIVEEKLTHQME--TEN*EAQM<AAKLECLREKNNYIEEVRKNKE

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 26 .06 RPM
SRP012922_cerebellum 0 .00 RPM 399 .90 RPM
SRP012922_heart 0 .00 RPM 0 .93 RPM
SRP012922_kidney 0 .00 RPM 1 .10 RPM
SRP012922_liver 0 .00 RPM 28 .17 RPM
SRP012922_lung 0 .00 RPM 15 .73 RPM
SRP012922_quadricep_muscle 0 .00 RPM 0 .52 RPM
SRP012922_spleen 0 .11 RPM 88 .82 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_2381 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 8 parental genes, and 12 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG00000003373 3 retrocopies
retro_dnov_2381 , retro_dnov_545, retro_dnov_831,
Dasypus novemcinctus ENSDNOG000000037561 retrocopy
Mustela putorius furoENSMPUG000000018631 retrocopy
Otolemur garnettii ENSOGAG000000278692 retrocopies
Oryzias latipes ENSORLG000000082511 retrocopy
Sorex araneus ENSSARG000000109891 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000250942 retrocopies
Tarsius syrichta ENSTSYG000000147591 retrocopy



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