RetrogeneDB ID: retro_dnov_2188

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_54102:946..1427(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DTWD2
• Ensembl ID: ENSDNOG00000014789
• Aliases: None
• Description: DTW domain containing 2 [Source:HGNC Symbol;Acc:19334]

Sequence

>retro_dnov_2188
AGAGATCCTGAAATTCAACTACTTACCCAAAGTCTGGTACATTAATATTATACCAGAGGCTACAGCTTCCAATTTGAAAG
CATTTATATTACATTGCCCTATTCATCTTTCACAAACATCATTGATAATGTGTCGGGCTAGGAACATTTTCTATAAGAAT
TCCTTTTTTGACTTCCCAAACAGGAGCAATTAAAAACTAGCATTTCCAGTAAGTATGTAATTTGTATGCAACCAACTAAT
AGATGCTTTTCTACACTGGAGTGTGCAGATATTGCTCTTTCCATCTTGGAGAAAAATAATTACATACAAAAGACTTTACT
TCAACCTTCTTCAAGCGTTATGCTCCTTCCAGCTTCAGCATGGTACTCAAATTCACCTCAGCATGCAGCACCTTCTGAAA
AATGGATTATATGCTAAGTCCATGCCAAAGAACAAATGCAAACTCAGGAAAATGGAACTGTTAATGAACAGTATTAAAAT
T

Alignment

ORF - retro_dnov_2188 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.62 %
• Parental protein coverage: 55.03 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  RDPEL-STICRKSGTLVLY-PGAEAANLEEFILDSPIYPSTIIIIDGTWSQAKDIFYKNS-LFRLPKQVQ
          RDPE..ST...KSGTL.LY.P.A.A.NL..FIL..PI..S....I......A..IFYKNS.LF.LPKQ.Q
Retrocopy RDPEI<STTYPKSGTLILY<PEATASNLKAFILHCPIHLSQTSLI---MCRARNIFYKNS<LF*LPKQEQ

Parental  LKTSISSQYVIRMQPTNRCLSTLECAAVALSILEKNNYIQKTLLRP-LQALCSFQLQHGAQIRLSKEHLL
          LKTSISS.YVI.MQPTNRC.STLECA..ALSILEKNNYIQKTLL.P.LQALCSFQLQHG.QI.LS..HLL
Retrocopy LKTSISSKYVICMQPTNRCFSTLECADIALSILEKNNYIQKTLLQP>LQALCSFQLQHGTQIHLSMQHLL

Parental  RNGLYPKPMPKNKRKLRKMELLMNSIKI
          .NGLY.K.MPKNK.KLRKMELLMNSIKI
Retrocopy KNGLYAKSMPKNKCKLRKMELLMNSIKI

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	6.22 RPM
SRP012922_cerebellum	0.00 RPM	2.89 RPM
SRP012922_heart	0.00 RPM	4.18 RPM
SRP012922_kidney	0.00 RPM	2.74 RPM
SRP012922_liver	0.00 RPM	1.39 RPM
SRP012922_lung	0.00 RPM	2.44 RPM
SRP012922_quadricep_muscle	0.00 RPM	5.02 RPM
SRP012922_spleen	0.00 RPM	2.86 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_2188 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000014789	1 retrocopy	retro_dnov_2188 ,
Gorilla gorilla	ENSGGOG00000009599	1 retrocopy	retro_ggor_2167,
Pongo abelii	ENSPPYG00000015707	2 retrocopies	retro_pabe_1493, retro_pabe_1494,
Pan troglodytes	ENSPTRG00000017164	1 retrocopy	retro_ptro_1168,