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 symbol: None
• Ensembl ID: ENSDNOG00000019514
• Aliases: None
• Description: None

Sequence

>retro_dnov_292
ATGAAAGATCCAAGTCGCAGCAGTACTAGCCCAAGCATCATCAATGAAGATGTGATTATTAATGGTCCTTCTCATGAAGA
TGACAATCCATTTGCAGAGGACATGCGGATGGAAAATGAAGAAGAATTCAACAGACAAATAGAAGAGGAGTTATGGGAAG
AAGAATTTATTGAACGCTGTTTCCAAGAAATGCTGGAAGAGGAAGAAGAACATGAATGGTTTATTCCAGCTCGAGATCTC
CCACAAACTATGGACCAAATCCAGGACCAGTTTAACAACCTTGTTATCAGTGATGGCTCTTCTCTGGAAGATTTTGTGGT
CAAGAGCAATCTGAATCCAAATGCAAACGTGTTTGTCCTGGGGTGAAGTAC

Alignment

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:

Parental  MNGSSVASTSPSVKSKEDQGVNGHD-EKENPFAEYMWMENEEDFNRQVEEELQEQDFLDRCFQEMLDEED
          M...S..STSPS....ED...NG...E..NPFAE.M.MENEE.FNRQ.EEEL.E..F..RCFQEML.EE.
Retrocopy MKDPSRSSTSPSIIN-EDVIINGPSHEDDNPFAEDMRMENEEEFNRQIEEELWEEEFIERCFQEMLEEEE

Parental  Q-DWFIPSRDLPRAMGQLQQQLNGLSVSESHDSEDILSKSNLNPDAKEFI-PGVKY
          ...WFIP.RDLP..M.Q.Q.Q.N.L..S.....ED...KSNLNP.A..F..PGVKY
Retrocopy EHEWFIPARDLPQTMDQIQDQFNNLVISDGSSLEDFVVKSNLNPNANVFV<PGVKY

Legend:

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

Expression

RNA-Seq

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

ChIP-Seq

Dasypus novemcinctus was not studied using ChIP-Seq data.

EST

Dasypus novemcinctus was not studied using EST data.

TSS

Dasypus novemcinctus was not studied using FANTOM5 data.

Lab

retro_dnov_292 was not experimentally validated.

Homology

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.

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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 ,