RetrogeneDB ID: retro_dnov_507

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_5496:136486..137396(-)
• Located in intron of: ENSDNOG00000008637

Retrocopy information

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

Parental gene information

• Parental gene symbol: PLA2G7
• Ensembl ID: ENSDNOG00000007266
• Aliases: None
• Description: phospholipase A2, group VII (platelet-activating factor acetylhydrolase, plasma) [Source:HGNC Symbol;Acc:9040]

Sequence

>retro_dnov_507
TCAATGACAGCTCCTGCAAAGTGGGATTCCCCTCTGAGGACTAGTAAAAAATACCCACTAATTGTTTTCTCTCATGGTCT
CAGAGCATTCAGGACAATTTACTCTGCTCTTGGCATTGACCTGGCATCTCATAGGATCATAGTTGCTGCTGTAGAACACA
GGGATGGATCTGCATCTACAACTTACTATTTCAAGGACCAATCTGCTGTAGAAATAGGGAATAAGACTTAGCTCTATATA
AAACAAGAGGCACCTGATTGAAACTTTCAGGTGCAGAAAAGAGCAAAAGAGTGCTCTCAAGCTCTCACTTTGATTCTTGA
CATTGATCATGGAAAGCCAGCAAAGAATGTATTTGATTTAAAGTTTGATGTGAAACAACTGAAGGACTCTATTGACAGGA
ATAAAATAGCAATAATTGGACATTCTTTTGGAGGAGCAACAGTGATTCAGGCTCTTAGTGTAGCCCAGAGATTCAGATGT
GGCATTGCCTTGAATGCATTGGATGCGTCCACTGTGTGATGAAGTATATGCCAGAATTCCTCAACCCCTCTTTTTTATCA
ACTCTGAACAGTTCCAACACTTTGAAAATAACACAGAAATGGTCCATTTCTACTCACCTGATAAAGGAAAATGATTACAA
TCGGGTTCAGTCCCTCTGAATTTTGCTGACTTCACTTTTGCAACTAGCAAAATCATTGAATACATGTTCATCTTAAAAGG
AACTATCGATTCATATGTAGCTATTGAGCTTAGCAACAAAGCTTCTTTAGCATTCTTACAAAAGCATTTAGGACTTCAGA
AAGGTTTTGATCAGTGGGACTCTCTGATTGAAGGGAAAGATGAAAATCTTTTTCCAGGGACCAACACTGACAAAACCACT
CTACAGAACTGTACAGGAACAGAGAAAGAG

Alignment

ORF - retro_dnov_507 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.69 %
• Parental protein coverage: 99.67 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SMTTPAKWDSPLRTGEKYPLIVFSHGLGAFRTIYSAIGIDLASHGFIVAAVEHRDGSAAATYYFKDQSAV
          SMT.PAKWDSPLRT..KYPLIVFSHGL.AFRTIYSA.GIDLASH..IVAAVEHRDGSA..TYYFKDQSAV
Retrocopy SMTAPAKWDSPLRTSKKYPLIVFSHGLRAFRTIYSALGIDLASHRIIVAAVEHRDGSASTTYYFKDQSAV

Parental  EIGNKTWLYIKQEAPDRNFQVQKRAKECSQALTLILDIDHGKPAKNVLDLKFDVKQLKDSIDRNKIAIIG
          EIGNKT.LYIKQEAPD.NFQVQKRAKECSQALTLILDIDHGKPAKNV.DLKFDVKQLKDSIDRNKIAIIG
Retrocopy EIGNKT*LYIKQEAPD*NFQVQKRAKECSQALTLILDIDHGKPAKNVFDLKFDVKQLKDSIDRNKIAIIG

Parental  HSFGGATVIQALSEDQRFRCGIALDA-WMRPLSDEVYARIPQPLFFINSEQFQHFGNNTEMVHFYSSDKE
          HSFGGATVIQALS..QRFRCGIAL.A.WMRPL.DEVYARIPQPLFFINSEQFQHF.NNTEMVHFYS.DK.
Retrocopy HSFGGATVIQALSVAQRFRCGIALNA>WMRPLCDEVYARIPQPLFFINSEQFQHFENNTEMVHFYSPDKG

Parental  RKMITIRGSVHQNFADFTFATGKIIGYMFILKGTIDSYVAIELSNKASLAFLQKHLGL-KGFDQWNSLIE
          .......GSV..NFADFTFAT.KII.YMFILKGTIDSYVAIELSNKASLAFLQKHLGL.KGFDQW.SLIE
Retrocopy K*LQS--GSVPLNFADFTFATSKIIEYMFILKGTIDSYVAIELSNKASLAFLQKHLGLQKGFDQWDSLIE

Parental  EEDENLIPGTNTDKTTRILQNFTGIEKD
          ..DENL.PGTNTDKTT..LQN.TG.EK.
Retrocopy GKDENLFPGTNTDKTT--LQNCTGTEKE

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	1.36 RPM	5.64 RPM
SRP012922_cerebellum	1.65 RPM	14.02 RPM
SRP012922_heart	0.70 RPM	2.09 RPM
SRP012922_kidney	4.38 RPM	46.27 RPM
SRP012922_liver	4.64 RPM	66.72 RPM
SRP012922_lung	7.48 RPM	74.83 RPM
SRP012922_quadricep_muscle	0.17 RPM	0.87 RPM
SRP012922_spleen	6.18 RPM	77.26 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_507 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000007266	1 retrocopy	retro_dnov_507 ,