RetrogeneDB ID: retro_dnov_1868

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_34321:42201..42769(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSDNOG00000009462
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000012571
• Aliases: None
• Description: None

Sequence

>retro_dnov_1868
CGACCAGGAATGCTCGAAGTAGCTGAGAGCTCTGCCAGCATCCGTCTTCGGTGGACGCAAGTCAAAAGAGCCATTGCGGA
GCTAAACCGCATATTACTAAGCATTACAAGTCAGAGTTCTGAGACTTGCTCTGGAGTGGGCAGTATCAAACGGAGAAATG
CTCATAACCCAGAATAGCTCTTTGGAATTTAAGCTACACAGACTGTATCTCATTAGCCTGTTAATGGGTGGAACTACAAA
TCAGCGAGAAGCTTTACAATATGCTAAAAATTTTCAGCCATCCGCCCTAAATCTTCAAAAAGATATTCAGGTCTTGATGG
GAAGCCCTGTGTATCTGAGACAAGGGATTGAGAACTCACCTCATGTTCACCTGCGTGATGCAGACCAGTGGGCTGACATC
TGTGACATCACGCGGGACGCCTGCGCCCTCCTCGGGCCGTCTGTGGAGTCCCCTCTCAGTATCAGTTTCTCAGCAGATTG
TGTGGCGCTGCCAGCTTTAATTAACAGCAAAGCCGTGATTGAACAAAGGCAGTGCACTGGAGTTTGGAACCAGAAAGATG
AATTACCT

Alignment

ORF - retro_dnov_1868 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.69 %
• Parental protein coverage: 59.63 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  RQGMLDVAE-ELCQESGLSVDPSQK-EPF-VELNRILE-ALKVRVLRPALEWAVSNREMLIAQNSSLEFK
          R.GML.VAE.ELCQ....SVD.SQK.EP...ELNRIL..AL.VRVLR.ALEWAVSN.EMLI.QNSSLEFK
Retrocopy RPGMLEVAE<ELCQHPS-SVDASQK<EPL<AELNRILL>ALQVRVLRLALEWAVSNGEMLITQNSSLEFK

Parental  LHRLYFISLLMGGTTNQREALQYAKNFQPFALNHQKDIQVLMGSLVYLRQGIENSPYVHLLDANQWADIC
          LHRLY.ISLLMGGTTNQREALQYAKNFQP.ALN.QKDIQVLMGS.VYLRQGIENSP.VHL.DA.QWADIC
Retrocopy LHRLYLISLLMGGTTNQREALQYAKNFQPSALNLQKDIQVLMGSPVYLRQGIENSPHVHLRDADQWADIC

Parental  DIFTRDACALLGLSVESPLSVSFSAGCVALPALINIKAVIEQRQCTGVWNQKDELP
          DI.TRDACALLG.SVESPLS.SFSA.CVALPALIN.KAVIEQRQCTGVWNQKDELP
Retrocopy DI-TRDACALLGPSVESPLSISFSADCVALPALINSKAVIEQRQCTGVWNQKDELP

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	0.00 RPM	26.45 RPM
SRP012922_cerebellum	0.00 RPM	54.99 RPM
SRP012922_heart	0.00 RPM	26.68 RPM
SRP012922_kidney	0.27 RPM	32.03 RPM
SRP012922_liver	0.00 RPM	26.01 RPM
SRP012922_lung	0.00 RPM	29.78 RPM
SRP012922_quadricep_muscle	0.35 RPM	77.02 RPM
SRP012922_spleen	0.00 RPM	42.24 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_1868 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 2 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000012571	2 retrocopies	retro_dnov_1868 , retro_dnov_35,
Tupaia belangeri	ENSTBEG00000016987	3 retrocopies	retro_tbel_2562, retro_tbel_4249, retro_tbel_551,