RetrogeneDB ID:

retro_dnov_292

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_3339:179713..180084(-)
Located in intron of:ENSDNOG00000010283
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSDNOG00000019514
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_dnov_292
ATGAAAGATCCAAGTCGCAGCAGTACTAGCCCAAGCATCATCAATGAAGATGTGATTATTAATGGTCCTTCTCATGAAGA
TGACAATCCATTTGCAGAGGACATGCGGATGGAAAATGAAGAAGAATTCAACAGACAAATAGAAGAGGAGTTATGGGAAG
AAGAATTTATTGAACGCTGTTTCCAAGAAATGCTGGAAGAGGAAGAAGAACATGAATGGTTTATTCCAGCTCGAGATCTC
CCACAAACTATGGACCAAATCCAGGACCAGTTTAACAACCTTGTTATCAGTGATGGCTCTTCTCTGGAAGATTTTGTGGT
CAAGAGCAATCTGAATCCAAATGCAAACGTGTTTGTCCTGGGGTGAAGTAC

ORF - retro_dnov_292 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 57.14 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMNGSSVASTSPSVKSKEDQGVNGHD-EKENPFAEYMWMENEEDFNRQVEEELQEQDFLDRCFQEMLDEED
M...S..STSPS....ED...NG...E..NPFAE.M.MENEE.FNRQ.EEEL.E..F..RCFQEML.EE.
RetrocopyMKDPSRSSTSPSIIN-EDVIINGPSHEDDNPFAEDMRMENEEEFNRQIEEELWEEEFIERCFQEMLEEEE
ParentalQ-DWFIPSRDLPRAMGQLQQQLNGLSVSESHDSEDILSKSNLNPDAKEFI-PGVKY
...WFIP.RDLP..M.Q.Q.Q.N.L..S.....ED...KSNLNP.A..F..PGVKY
RetrocopyEHEWFIPARDLPQTMDQIQDQFNNLVISDGSSLEDFVVKSNLNPNANVFV<PGVKY

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 .78 RPM 5 .25 RPM
SRP012922_cerebellum 0 .96 RPM 4 .40 RPM
SRP012922_heart 0 .93 RPM 16 .71 RPM
SRP012922_kidney 0 .55 RPM 7 .94 RPM
SRP012922_liver 0 .46 RPM 10 .99 RPM
SRP012922_lung 1 .53 RPM 4 .58 RPM
SRP012922_quadricep_muscle 0 .00 RPM 23 .71 RPM
SRP012922_spleen 0 .34 RPM 6 .75 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_292 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 3 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG00000019514 3 retrocopies
retro_dnov_2363, retro_dnov_291, retro_dnov_292 ,



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