RetrogeneDB ID: retro_dnov_2247

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_58145:4290..4617(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DNAJC24
• Ensembl ID: ENSDNOG00000013512
• Aliases: None
• Description: DnaJ (Hsp40) homolog, subfamily C, member 24 [Source:HGNC Symbol;Acc:26979]

Sequence

>retro_dnov_2247
AGACAAAGTGCAGACGTGCCAGCAGGAGCAATAGAGGAATGCATACAGAATTTCACCAGAATTGATCAAGCATGGGAAAT
TCTAGGGAATGAAGAGACAAAAAAAAAAGAGTATGACCTGCAGCGGCATGAAGATGATCTAAGAAATATGGGGCCAATAG
ATGCACAAGTGTATCTTGAGGAATTGCCCTGGAATGAAGACGATCACTCTTTTTCTCTGAGTTGCCGATGTGGAGGAAAA
TACAGTGTTTCCAAGGATGAAGCAGAAGAAATTAACCTGATTTCTTGTGATACATGTTCACGAGTTATAGAACTCCTTCA
TCATTGC

Alignment

ORF - retro_dnov_2247 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.82 %
• Parental protein coverage: 96.43 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KQSTDVPAGAVEECIQKFIEIDQAWKILGNEETKK-EYDLQRHEDNLRNRGAIDAQVCLEDLSWNEDDDS
          .QS.DVPAGA.EECIQ.F..IDQAW.ILGNEE....EYDLQRHED.LRN.G.IDAQV.LE.L.WNEDD.S
Retrocopy RQSADVPAGAIEECIQNFTRIDQAWEILGNEEXXXXEYDLQRHEDDLRNMGPIDAQVYLEELPWNEDDHS

Parental  FSLSCRCGGKYSVSKDEAEEVNLISCDTCSLIIELLHYC
          FSLSCRCGGKYSVSKDEAEE.NLISCDTCS..IELLH.C
Retrocopy FSLSCRCGGKYSVSKDEAEEINLISCDTCSRVIELLHHC

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	2.53 RPM
SRP012922_cerebellum	0.00 RPM	1.79 RPM
SRP012922_heart	0.00 RPM	0.70 RPM
SRP012922_kidney	0.00 RPM	1.10 RPM
SRP012922_liver	0.00 RPM	1.08 RPM
SRP012922_lung	0.00 RPM	1.83 RPM
SRP012922_quadricep_muscle	0.00 RPM	1.38 RPM
SRP012922_spleen	0.00 RPM	2.52 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_2247 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 11 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000013512	1 retrocopy	retro_dnov_2247 ,
Dipodomys ordii	ENSDORG00000000248	3 retrocopies	retro_dord_221, retro_dord_395, retro_dord_77,
Echinops telfairi	ENSETEG00000003054	1 retrocopy	retro_etel_161,
Microcebus murinus	ENSMICG00000007553	3 retrocopies	retro_mmur_1052, retro_mmur_1150, retro_mmur_973,
Macaca mulatta	ENSMMUG00000006845	1 retrocopy	retro_mmul_2112,
Nomascus leucogenys	ENSNLEG00000017878	1 retrocopy	retro_nleu_3029,
Otolemur garnettii	ENSOGAG00000007848	1 retrocopy	retro_ogar_1542,
Ochotona princeps	ENSOPRG00000001638	1 retrocopy	retro_opri_881,
Pongo abelii	ENSPPYG00000003390	2 retrocopies	retro_pabe_2783, retro_pabe_2788,
Pan troglodytes	ENSPTRG00000003471	1 retrocopy	retro_ptro_2301,
Tarsius syrichta	ENSTSYG00000009243	1 retrocopy	retro_tsyr_623,