RetrogeneDB ID: retro_dnov_444

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_4793:148..557(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000010925
• Aliases: None
• Description: None

Sequence

>retro_dnov_444
GAGCAGAAAAAGACCATTCAGATGAGATCTTTCTGAGTCAATCCAGATGACAGCCAGTCAGTAGTGAGAGGTGCCTGATG
CCCGCTCAGAGACCCACCTCACAGAGCTGCTAGAAGAGGTGTGTGACTGGATGAGGGAGTACGGGGAACAGGTCGACCCT
TCCACCCACCGCAAGAACTATGTCCATGTAGTGGGCCAGGGCGGAGAATCCAGTGAGCTGGACCTACGGGGCATCTGAAT
TGATTCAGACATCAGTGGCAGCCTCAAGTTTGCGTGTGAGAGCATGATGGAAGAATATGAGGATGAACTCATGGAATTCT
TTTCCCAAGAAGCTGACACGTTGAAGACAAACTTTAGTAAGCGAAGAGATCCATGTGCCCATGCCCTGCACATATCTCAT
GACGAGCTG

Alignment

ORF - retro_dnov_444 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.46 %
• Parental protein coverage: 90.13 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DHRKTIQMGSFRINPDGSQSVM-EVPYARSEAHLTELLEEVCDRMKEYGEQIDPSTHRKNYVRVVGRNGE
          ...KTIQM.SF..NPD.SQSV..EVP.ARSE.HLTELLEEVCD.M.EYGEQ.DPSTHRKNYV.VVG..GE
Retrocopy EQKKTIQMRSF*VNPDDSQSVV>EVPDARSETHLTELLEEVCDWMREYGEQVDPSTHRKNYVHVVGQGGE

Parental  SSELDLQGIRIDSDISGTLKFACESIVEEYEDELIEFFSREAHNVKDRLCSMRTDLCDHTLPLSHDEL
          SSELDL.GI.IDSDISG.LKFACES..EEYEDEL.EFFS.EA...K....S.R.D.C.H.L..SHDEL
Retrocopy SSELDLRGI*IDSDISGSLKFACESMMEEYEDELMEFFSQEADTLKTNF-SKRRDPCAHALHISHDEL

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	0.19 RPM	51.92 RPM
SRP012922_cerebellum	0.00 RPM	49.49 RPM
SRP012922_heart	0.00 RPM	14.15 RPM
SRP012922_kidney	0.00 RPM	55.03 RPM
SRP012922_liver	0.00 RPM	26.16 RPM
SRP012922_lung	0.15 RPM	48.11 RPM
SRP012922_quadricep_muscle	0.00 RPM	7.96 RPM
SRP012922_spleen	0.11 RPM	44.53 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_444 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000011259	1 retrocopy	retro_cjac_1188,
Dasypus novemcinctus	ENSDNOG00000010925	1 retrocopy	retro_dnov_444 ,
Mustela putorius furo	ENSMPUG00000001366	1 retrocopy	retro_mputfur_930,
Ictidomys tridecemlineatus	ENSSTOG00000015971	1 retrocopy	retro_itri_928,