RetrogeneDB ID: retro_dnov_498

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_535:163925..164331(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPS6
• Ensembl ID: ENSDNOG00000025622
• Aliases: None
• Description: mitochondrial ribosomal protein S6 [Source:HGNC Symbol;Acc:14051]

Sequence

>retro_dnov_498
CCTCTGTCCCTGTGTCCTGGGAGCTTATGTGTCATGTGTTCGAGCATGTCCAGCTATGACTGACTTTGATCCTCAAAGTC
ATACAGTGGCCAGAAACTACTGCAGCTTTGAAATGAATGATTGAAACCCTGATGGACAAAGGAGCCATGGTGAGGAATCT
GGAAAACTCAGAAGAGCAAGCACTTCCTTATAAGATCTTCTCCCACAGTCCTGGCACGGCAAAGGAGGGTATTTCATGGT
GAATTTTTGTGCACCAACAACTACGGAAAGTAGGATGGATCATTTGTCTCCTGACACTGATGTGATTCAACCAAACATTG
TCATGCACTTACTAACCAAGGAAGTAAGAGAGTACAAAAGGTTTGTCCCAGTCCCACTGGAAGAAAAATTGTATTACACA
AAGAAG

Alignment

ORF - retro_dnov_498 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65. %
• Parental protein coverage: 79.31 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PRPPCPASLALAVCPGMPRYE-LALILKAMQRPETAAALKRTIEALMDRGAIVRNLENLGERALPYKISS
          P...CP.SL....C..M..Y..L.LILK..Q.PET.AALK..IE.LMD.GA.VRNLEN..E.ALPYKI.S
Retrocopy PLSLCPGSLCV-MCSSMSSYD<LTLILKVIQWPETTAALK*MIETLMDKGAMVRNLENSEEQALPYKIFS

Parental  HNQR-HSRGGYFLVDFYAPTTVVESMLDHLSRDTDVIRPNIVKHPLTKEVRECEGMVPVPLEEKLYYTKK
          H....H..GGYF.V.F.APTT..ES..DHLS.DTDVI.PNIV.H.LTKEVRE....VPVPLEEKLYYTKK
Retrocopy HSPG<HGKGGYFMVNFCAPTTT-ESRMDHLSPDTDVIQPNIVMHLLTKEVREYKRFVPVPLEEKLYYTKK

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	13.03 RPM
SRP012922_cerebellum	0.27 RPM	27.22 RPM
SRP012922_heart	0.00 RPM	16.24 RPM
SRP012922_kidney	0.00 RPM	33.13 RPM
SRP012922_liver	0.46 RPM	3.41 RPM
SRP012922_lung	0.00 RPM	17.87 RPM
SRP012922_quadricep_muscle	0.00 RPM	16.96 RPM
SRP012922_spleen	0.23 RPM	12.13 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_498 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000025622	1 retrocopy	retro_dnov_498 ,
Homo sapiens	ENSG00000243927	1 retrocopy	retro_hsap_149,
Nomascus leucogenys	ENSNLEG00000004239	1 retrocopy	retro_nleu_896,
Pan troglodytes	ENSPTRG00000013877	1 retrocopy	retro_ptro_145,