RetrogeneDB ID: retro_dnov_2049

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_44447:10442..10752(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPS24
• Ensembl ID: ENSDNOG00000016853
• Aliases: None
• Description: mitochondrial ribosomal protein S24 [Source:HGNC Symbol;Acc:14510]

Sequence

>retro_dnov_2049
TCATGTGTGGCAGGCCTCGCGGCGCGGGTCCTGCCGGGAGCAGAGAGCTGCTGTGACCCAGCGCGCCCTGCACGTCTCTG
CGGCCTGTCCCAGGAACTGGGCAGCCAGAGTCCGTGTGGGCTAGGGGAGCAAGCCAGTGCCCTACGAGGAGACACACGCG
CCACAACACAGCACCCACCAAAAGGGCTGGCTGTTGCCGCACACAGGGACACGGGACACGGAGGAATATGCTGCAGAGCG
ATGGACGGAGGATGGCTTCCTGCGCAGGTTCGTGCTGGGTGCCTTCCCGGGCTGCCTGGCTGACCTGGTG

Alignment

ORF - retro_dnov_2049 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.09 %
• Parental protein coverage: 62.28 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ACGRGIAARVL-AGSRGPL-CAGRALHVSAACAKNRAARIRVGKGDKPVTYEEAHAPHYIAHRKGWLSLH
          .C..G.AARVL.AGSR..L....RALHVSAAC..N.AAR.RVG.G.KPV.YEE.HAP....H.KGWL..H
Retrocopy SCVAGLAARVL<AGSRELL<VTQRALHVSAACPRNWAARVRVG*GSKPVPYEETHAPQHSTHQKGWLLPH

Parental  TGNLDGEEHAAERTVEDVFLRKFMLGTFPGCLADQV
          TG..D.EE.AAER..ED.FLR.F.LG.FPGCLAD.V
Retrocopy TGTRDTEEYAAERWTEDGFLRRFVLGAFPGCLADLV

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	17.31 RPM
SRP012922_cerebellum	0.00 RPM	13.33 RPM
SRP012922_heart	0.00 RPM	12.53 RPM
SRP012922_kidney	0.00 RPM	16.98 RPM
SRP012922_liver	0.00 RPM	14.86 RPM
SRP012922_lung	0.00 RPM	16.49 RPM
SRP012922_quadricep_muscle	0.00 RPM	20.25 RPM
SRP012922_spleen	0.11 RPM	16.94 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_2049 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.

---

Parental genes homology:

Parental genes homology involve 13 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017491	1 retrocopy	retro_amel_1126,
Bos taurus	ENSBTAG00000007398	1 retrocopy	retro_btau_411,
Choloepus hoffmanni	ENSCHOG00000003106	1 retrocopy	retro_chof_2334,
Dasypus novemcinctus	ENSDNOG00000016853	3 retrocopies	retro_dnov_1195, retro_dnov_153, retro_dnov_2049 ,
Echinops telfairi	ENSETEG00000016782	1 retrocopy	retro_etel_1350,
Homo sapiens	ENSG00000062582	1 retrocopy	retro_hsap_836,
Gorilla gorilla	ENSGGOG00000005692	1 retrocopy	retro_ggor_687,
Loxodonta africana	ENSLAFG00000011905	1 retrocopy	retro_lafr_426,
Macaca mulatta	ENSMMUG00000002405	1 retrocopy	retro_mmul_1089,
Monodelphis domestica	ENSMODG00000013889	1 retrocopy	retro_mdom_1785,
Pan troglodytes	ENSPTRG00000019127	1 retrocopy	retro_ptro_583,
Pteropus vampyrus	ENSPVAG00000015911	4 retrocopies	retro_pvam_1129, retro_pvam_1360, retro_pvam_180, retro_pvam_978,
Tursiops truncatus	ENSTTRG00000002938	1 retrocopy	retro_ttru_1860,