RetrogeneDB ID: retro_dnov_1549

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_23283:15075..15375(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000015517
• Aliases: None
• Description: None

Sequence

>retro_dnov_1549
GTAAAGGCCCGCGGCGATGAAACAGTTGTAGTTGACTTGTGGGTAAAGGTCGTATATGTCATTGGGGCCATTCACAAAAT
CCTGCTCTGTGAAGGGAACATCCTCAATTAACACAGCGGAATGAACATTGAAAAGATCCCAAGCATGATCAACATGATCA
CCCCCCAAACGCTGAGGACGAGGCCGCAGGCGGCCAGCTTGGGCCCACAGCACAGGAGCGCCGCCATGAAGCAGCCAGCG
GCATCGGCCTGGTGTGGGCCGAGTGGAAAGGCGACGGGAGGAAGCCCAGGAAGCGCCGGG

Alignment

ORF - retro_dnov_1549 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.24 %
• Parental protein coverage: 61.11 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VKARGDETVVADLLVKFVYVIGAILKILLCEGNILN-HSGMNIEK-DPEHDQHDHSPNAEDDAAGGQLGP
          VKARGDETVV.DL.VK.VYVIGAI.KILLCEGNILN.HSGMNIEK.DP.HDQHDH.PNAED.AAGGQLGP
Retrocopy VKARGDETVVVDLWVKVVYVIGAIHKILLCEGNILN*HSGMNIEK<DPKHDQHDHPPNAEDEAAGGQLGP

Parental  TAQERRHEAASG-SARCGPSGKATRGSPGSAG
          TAQERRHEAASG.SA.CGPSGKAT.GSPGSAG
Retrocopy TAQERRHEAASG>SAWCGPSGKATGGSPGSAG

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	46.87 RPM
SRP012922_cerebellum	0.00 RPM	78.08 RPM
SRP012922_heart	0.00 RPM	27.61 RPM
SRP012922_kidney	0.00 RPM	172.76 RPM
SRP012922_liver	0.15 RPM	32.04 RPM
SRP012922_lung	0.00 RPM	65.52 RPM
SRP012922_quadricep_muscle	0.00 RPM	20.94 RPM
SRP012922_spleen	0.00 RPM	50.13 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_1549 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000015517	1 retrocopy	retro_dnov_1549 ,
Microcebus murinus	ENSMICG00000014057	1 retrocopy	retro_mmur_1371,
Tarsius syrichta	ENSTSYG00000006901	2 retrocopies	retro_tsyr_1105, retro_tsyr_1738,