RetrogeneDB ID: retro_dnov_762

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_10545:12027..12389(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RPP14
• Ensembl ID: ENSDNOG00000013439
• Aliases: None
• Description: ribonuclease P/MRP 14kDa subunit [Source:HGNC Symbol;Acc:30327]

Sequence

>retro_dnov_762
GCCCCAGCTACCACATATGAAAGAATAGTTCACAAAACTCCTCCTGAACACCACTACATGTAGGTCTATCTAGAATTTCA
AGAGCATGGCGTTGGAGTGAACGCCACTCAGTTCAAACAGCTGCTCATTTCAGCCTTGAAGAACCTGTTTGGAGAGGCTG
ATTCTGCCTTGCCCTTGGACTTCCTAAAATAAGAAGAGCAGACTTTGTCAGCCATCTTGAGAATATGCAGCAGTGGTCTT
GTGGAGCTCTTGGACCCTGTTAGGTCCTGCAAAGGCAAAAACAAAAATGTGCTTTCAGAGTGGTTCAGGTTTCTCCATAT
CTTCTTGCATTATCTGGTAATAATAGGAAACTTGTACTGGAT

Alignment

ORF - retro_dnov_762 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.6 %
• Parental protein coverage: 98.36 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ASSITYERIVYKNSFEHHYMKVCLEFQERGVGLNAAQFKQLLIQ--KDLFGEVDAALPLDILKYEEKTLS
          A...TYERIV.K...EHHYM.V.LEFQE.GVG.NA.QFKQLLI...K.LFGE.D.ALPLD.LK.EE.TLS
Retrocopy APATTYERIVHKTPPEHHYM*VYLEFQEHGVGVNATQFKQLLISALKNLFGEADSALPLDFLK*EEQTLS

Parental  AILRICSSGLVKL-WSSLTLLGCYKGK-KCAF-RVIQVSPFLLALSGNSRELVLD
          AILRICSSGLV.L.W....LLG..K.K.K..F.RV.QVSP.LLALSGN.R.LVLD
Retrocopy AILRICSSGLVEL>WT---LLGPAKAKTKMCF>RVVQVSPYLLALSGNNRKLVLD

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	4.67 RPM
SRP012922_cerebellum	0.00 RPM	5.09 RPM
SRP012922_heart	0.00 RPM	3.71 RPM
SRP012922_kidney	0.00 RPM	3.29 RPM
SRP012922_liver	0.00 RPM	2.63 RPM
SRP012922_lung	0.00 RPM	6.57 RPM
SRP012922_quadricep_muscle	0.00 RPM	4.33 RPM
SRP012922_spleen	0.00 RPM	7.67 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_762 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 12 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000019987	1 retrocopy	retro_btau_1621,
Cavia porcellus	ENSCPOG00000004281	2 retrocopies	retro_cpor_476, retro_cpor_566,
Dasypus novemcinctus	ENSDNOG00000013439	1 retrocopy	retro_dnov_762 ,
Macropus eugenii	ENSMEUG00000010883	1 retrocopy	retro_meug_838,
Microcebus murinus	ENSMICG00000014541	1 retrocopy	retro_mmur_142,
Myotis lucifugus	ENSMLUG00000007998	1 retrocopy	retro_mluc_2291,
Ornithorhynchus anatinus	ENSOANG00000022513	1 retrocopy	retro_oana_119,
Oryctolagus cuniculus	ENSOCUG00000027202	3 retrocopies	retro_ocun_1160, retro_ocun_1359, retro_ocun_1425,
Rattus norvegicus	ENSRNOG00000039829	1 retrocopy	retro_rnor_1530,
Ictidomys tridecemlineatus	ENSSTOG00000015394	1 retrocopy	retro_itri_1072,
Tarsius syrichta	ENSTSYG00000013343	1 retrocopy	retro_tsyr_218,
Vicugna pacos	ENSVPAG00000000935	1 retrocopy	retro_vpac_202,