RetrogeneDB ID: retro_dnov_36

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_7508:159479..159827(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSDNOG00000010589
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000014555
• Aliases: None
• Description: None

Sequence

>retro_dnov_36
ATGCCGATGTTCATCGTGGACGCCAACGTGCCCCGTGCCTCCGTGCCGGACGGGCTCCTCTCCAAGCTCACCCAGCAGCT
GGTGCAGGCCACAGGCAAGCCGGCTCAGTACATCACAGTGCACGTGGTCCCAGACCAGCTCATGGCCTTTGGCGGCTCCA
GCGAGCCGTGCACGCTCTGCAGCCTGCACAGCACCGGCAAGATCGGCAGTGCGCAGAACCACTCCTACAGCAAGCTTCTG
TGCGGCCTGCTGGCCGAGCACCTGCGCCTCAGCCTGGACAGGATCTACATCAACTACTATGACATGAACGTGGCCAATGT
GGGCTGGAACAGCTCCACCTTCACCTGA

Alignment

ORF - retro_dnov_36 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.72 %
• Parental protein coverage: 99.13 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPMFVVNTNVPRASVPDGLLSELTQQLAQATGKPAQYIAVHVVPDQLMAFGGSSEPCALCSLHSIGKIGG
          MPMF.V..NVPRASVPDGLLS.LTQQL.QATGKPAQYI.VHVVPDQLMAFGGSSEPC.LCSLHS.GKIG.
Retrocopy MPMFIVDANVPRASVPDGLLSKLTQQLVQATGKPAQYITVHVVPDQLMAFGGSSEPCTLCSLHSTGKIGS

Parental  AQNRSYSKLLCGLLAERLRLSPDRIYINYYDMNAANVGWNGSTF
          AQN.SYSKLLCGLLAE.LRLS.DRIYINYYDMN.ANVGWN.STF
Retrocopy AQNHSYSKLLCGLLAEHLRLSLDRIYINYYDMNVANVGWNSSTF

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	0.78 RPM	135.16 RPM
SRP012922_cerebellum	0.14 RPM	89.63 RPM
SRP012922_heart	0.70 RPM	13.46 RPM
SRP012922_kidney	1.64 RPM	281.46 RPM
SRP012922_liver	0.00 RPM	69.04 RPM
SRP012922_lung	3.05 RPM	65.67 RPM
SRP012922_quadricep_muscle	0.17 RPM	7.27 RPM
SRP012922_spleen	0.69 RPM	79.44 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_36 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 8 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000010668	3 retrocopies	retro_cjac_2903, retro_cjac_3132, retro_cjac_357,
Cavia porcellus	ENSCPOG00000013520	1 retrocopy	retro_cpor_879,
Dasypus novemcinctus	ENSDNOG00000014555	1 retrocopy	retro_dnov_36 ,
Equus caballus	ENSECAG00000012792	1 retrocopy	retro_ecab_1122,
Echinops telfairi	ENSETEG00000012052	3 retrocopies	retro_etel_2001, retro_etel_2046, retro_etel_509,
Mus musculus	ENSMUSG00000033307	8 retrocopies	retro_mmus_1573, retro_mmus_1759, retro_mmus_1878, retro_mmus_2182, retro_mmus_2444, retro_mmus_3016, retro_mmus_3315, retro_mmus_489,
Ochotona princeps	ENSOPRG00000012184	1 retrocopy	retro_opri_968,
Rattus norvegicus	ENSRNOG00000006589	6 retrocopies	retro_rnor_137, retro_rnor_1608, retro_rnor_1644, retro_rnor_2263, retro_rnor_31, retro_rnor_361,