RetrogeneDB ID: retro_dnov_619

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_6868:102393..102757(-)
• Located in intron of: ENSDNOG00000001506

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000003696
• Aliases: None
• Description: None

Sequence

>retro_dnov_619
TTTAATGAAGGATTATAGGAAATAGAAAATCACACAAGAGTGAAGTTGACTGGATACCAGGCAATTCAGTAACAGAGCTC
TTCAGAAACTGAGGGAAAAGGTGGAAATACTGCAGATGCAAGCAATGAGGAAGAAGGTGATAGAGTAGAAGAAGATGGAA
AAGGCAAAAGAAGGAATGAAAACGCAGGCTCAAAACAGAAAAAATCATATACTTCCAAGAAATCCTCTAAACAGTTCCAG
AAATCTCCAGGAGATGAATATGACAAGGATTGCAAAGAAGAAAACAAAAGCAGCTCTGAGGATGGAGATGGCTGGCAGTG
ACACAAGAAACACAACTTCAGACTTGCAGAAAGCTAGTAAAGGG

Alignment

ORF - retro_dnov_619 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.55 %
• Parental protein coverage: 60.1 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  FNEGLWEIENNPGVKFTGYQAIQQQSSSETEGEGGNTADASSEEEGDRVEEDGKGKRKNEKAGSKRKKSY
          FNEGL.EIEN...VK.TGYQAIQ.QSSSETEG.GGNTADAS.EEEGDRVEEDGKGKR.NE.AGSK.KKSY
Retrocopy FNEGL*EIENHTRVKLTGYQAIQ*QSSSETEGKGGNTADASNEEEGDRVEEDGKGKRRNENAGSKQKKSY

Parental  TSKKSSKQFRKSPGDEDDKDCKEEENKSSSEGGD-AGNDTRNTTSDLQKTSEG
          TSKKSSKQF.KSPGDE.DKDCK.EENKSSSE.GD.AG.DTRNTTSDLQK.S.G
Retrocopy TSKKSSKQFQKSPGDEYDKDCK-EENKSSSEDGD>AGSDTRNTTSDLQKASKG

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	31.11 RPM
SRP012922_cerebellum	0.14 RPM	60.35 RPM
SRP012922_heart	0.23 RPM	29.24 RPM
SRP012922_kidney	0.27 RPM	49.56 RPM
SRP012922_liver	0.00 RPM	4.33 RPM
SRP012922_lung	0.92 RPM	53.61 RPM
SRP012922_quadricep_muscle	0.00 RPM	14.54 RPM
SRP012922_spleen	0.00 RPM	38.92 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_619 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 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000018527	1 retrocopy	retro_btau_1740,
Callithrix jacchus	ENSCJAG00000015775	1 retrocopy	retro_cjac_4165,
Dasypus novemcinctus	ENSDNOG00000003696	2 retrocopies	retro_dnov_619 , retro_dnov_819,
Dasypus novemcinctus	ENSDNOG00000010231	1 retrocopy	retro_dnov_4,
Echinops telfairi	ENSETEG00000010466	1 retrocopy	retro_etel_1234,
Loxodonta africana	ENSLAFG00000002512	1 retrocopy	retro_lafr_676,
Ictidomys tridecemlineatus	ENSSTOG00000028389	2 retrocopies	retro_itri_292, retro_itri_864,
Tursiops truncatus	ENSTTRG00000004950	1 retrocopy	retro_ttru_1471,
Vicugna pacos	ENSVPAG00000004599	1 retrocopy	retro_vpac_380,