RetrogeneDB ID: retro_dnov_845

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_113822:577..1408(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PRKAA2
• Ensembl ID: ENSDNOG00000015734
• Aliases: None
• Description: protein kinase, AMP-activated, alpha 2 catalytic subunit [Source:HGNC Symbol;Acc:9377]

Sequence

>retro_dnov_845
GTTGAAGAGATGGAAGCCTGGCGACTCTTTCAGCAGATTCTTTCTGCTGTGGATTACTGTCATAGGCATATGGTTGTTCA
TCGAGATCTGAAACCAGAGAATGTCCTATTGGATGCACACATGAATGCCAAGATAGCTGATTTTGGATTATCTAATATGA
TGTCAGATGGTGAATTTCTGCGAACTAGTTGTGGATCTCCAAATTATGCAGCACCTGAAGTCATCTCAGGCAGGTTGTAT
GCAGGTCCTGAAGTTGACATCTGGAGCTGTGGTGTTATTTTATATGCTCTTCTTTGTGGCACGCTCCCTTTTGATGATGA
GCATGTACCTACGTTATTTAAGAAGATCTGAGGAGGTGTTTTTTATATACCAGAATATCTTAATCGTTCTATTGCCACTC
TTCTGATGCATATGCTGCAGGTTGACCCCCTGAAACGAGCAACTATCAAAGACATAAGAGAACATGAATGGTTTAAACAA
GATTTGCCCAGTTACTTATTTCCTGAAGACCCTTCCTATGATGCTAACGTCATTGACAATGAGGCTGTGAAAGAAGTGTG
CGAAAAATTTGAGTGTACAGAATCAGAAGTAATGAACAGTTTATATAGTGGTGACCCTCAAGACCAGCTTGCAGTGGCTT
ATCATCTTATCATTGATAATCGGAGAATAATGAACCAAGCCAGTGAATTCTACCTCGCCTCTAGTCCCCCAACTGGATCT
TTTATGGATGATAGTGCCATGCATATTCCCCCAGGCCTGAAACCTCATCCAGAAAGGATGCCTCCTCTTATAGCAGACAG
CCCCAAAGCAAGATGTCCATTGGATGCACTG

Alignment

ORF - retro_dnov_845 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.92 %
• Parental protein coverage: 50.18 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VEEMEARRLFQQILSAVDYCHRHMVVHRDLKPENVLLDAHMNAKIADFGLSNMMSDGEFLRTSCGSPNYA
          VEEMEA.RLFQQILSAVDYCHRHMVVHRDLKPENVLLDAHMNAKIADFGLSNMMSDGEFLRTSCGSPNYA
Retrocopy VEEMEAWRLFQQILSAVDYCHRHMVVHRDLKPENVLLDAHMNAKIADFGLSNMMSDGEFLRTSCGSPNYA

Parental  APEVISGRLYAGPEVDIWSCGVILYALLCGTLPFDDEHVPTLFKKIRGGVFYIPEYLNRSIATLLMHMLQ
          APEVISGRLYAGPEVDIWSCGVILYALLCGTLPFDDEHVPTLFKKI.GGVFYIPEYLNRSIATLLMHMLQ
Retrocopy APEVISGRLYAGPEVDIWSCGVILYALLCGTLPFDDEHVPTLFKKI*GGVFYIPEYLNRSIATLLMHMLQ

Parental  VDPLKRATIKDIREHEWFKQDLPSYLFPEDPSYDANVIDDEAVKEVCEKFECTESEVMNSLYSGDPQDQL
          VDPLKRATIKDIREHEWFKQDLPSYLFPEDPSYDANVID.EAVKEVCEKFECTESEVMNSLYSGDPQDQL
Retrocopy VDPLKRATIKDIREHEWFKQDLPSYLFPEDPSYDANVIDNEAVKEVCEKFECTESEVMNSLYSGDPQDQL

Parental  AVAYHLIIDNRRIMNQASEFYLASSPPTGSFMDDSAMHIPPGLKPHPERMPPLIADSPKARCPLDAL
          AVAYHLIIDNRRIMNQASEFYLASSPPTGSFMDDSAMHIPPGLKPHPERMPPLIADSPKARCPLDAL
Retrocopy AVAYHLIIDNRRIMNQASEFYLASSPPTGSFMDDSAMHIPPGLKPHPERMPPLIADSPKARCPLDAL

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	8.56 RPM
SRP012922_cerebellum	0.00 RPM	1.79 RPM
SRP012922_heart	0.00 RPM	1.86 RPM
SRP012922_kidney	0.00 RPM	1.92 RPM
SRP012922_liver	0.00 RPM	2.63 RPM
SRP012922_lung	0.00 RPM	0.31 RPM
SRP012922_quadricep_muscle	0.17 RPM	7.44 RPM
SRP012922_spleen	0.00 RPM	0.23 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_845 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 2 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000002037	8 retrocopies	retro_dnov_1284, retro_dnov_1619, retro_dnov_1691, retro_dnov_2056, retro_dnov_2323, retro_dnov_2353, retro_dnov_341, retro_dnov_738,
Dasypus novemcinctus	ENSDNOG00000015734	1 retrocopy	retro_dnov_845 ,