RetrogeneDB ID: retro_dnov_97

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_1538:69356..70206(-)
• Located in intron of: ENSDNOG00000014243

Retrocopy information

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

Parental gene information

• Parental gene symbol: NTAN1
• Ensembl ID: ENSDNOG00000016017
• Aliases: None
• Description: N-terminal asparagine amidase [Source:HGNC Symbol;Acc:29909]

Sequence

>retro_dnov_97
GAAAGAGCCAGACTTCTCAGAGGTCAGTCTGTTCAACAAGTGGGACCCCAGGCCTTTCTGTATGTTCAGCAAAGAGAGCT
TGCAGTGACCTCCCCAAAGGATGGCTCAATCTCCATTCTGGGTTCTGATGATGCCACCACTTGTCACATTGTGGTCCTGA
GGCACACAGGTAATGGGGCTACCTGTTTGACACATTGTGATTGATCCGTCACCAAAGCTGAGGTCCTCTTGATCATGAAC
TCCATAAAATCCTTTTCCAACCCCTCTCAATGTGAAAGGCTAGAAGTACACCTCGTGGGAGGCTTCAGTGACGATAGGCA
GTTGTCACAAAAACTTACTCATCAACTTCTTAGTGAATTTGACAGACAAGAAGATGATATTCACTTGGTGACATTATGTG
TGACAGAATTAAATGATCGAGAAGGAAATGAAAAACACTTTCCAATAATTTATGGCATTGCTGTCAACATTAAAACTGCA
GAGATTTACAGAGCCTCCTTTCAAGATCGAGGTCCACAGGAGGAGCTGCATGCTGCGCGTGCTCTAACAGGAGGACCGAT
GATTAGCATATATGATGTAAAGACAGAACAACTTCGTATAGGACCATATTACTGGATGCCATTTCCCCATGTGGATTTCT
GGTTGCAGCAAGATGATAAGGAAATACTAGAGAACCTTTCCACGTTACCTCTGACTAAGCCCTCCCACTTTGTGGACCAC
ATCCGATCCACCTTGATATTTTAAAAAAATTACCCATCTCCAACCAACATGCTGTTTCCTGGAAATAAAGCTCTACTCTA
CAAAAAAAAAAGAAGACGGCTTATGGGAAAAGATCTCTTCTCCAGGAAGC

Alignment

ORF - retro_dnov_97 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.9 %
• Parental protein coverage: 91.59 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ERARLLRGQSVQQVGPQGLLYVQQRELAVTSPKDGSISILGSDDATTCHIVVLRHTGNGATCLTHCDGSD
          ERARLLRGQSVQQVGPQ..LYVQQRELAVTSPKDGSISILGSDDATTCHIVVLRHTGNGATCLTHCD.S.
Retrocopy ERARLLRGQSVQQVGPQAFLYVQQRELAVTSPKDGSISILGSDDATTCHIVVLRHTGNGATCLTHCD*SV

Parental  TKAEVPLIMNSIKSFSNHSQCGRLEVHLVGGFSDDRQLSQKLTHQLLSEFDRQEDDIHLVTLCVTELNDR
          TKAEV.LIMNSIKSFSN.SQC.RLEVHLVGGFSDDRQLSQKLTHQLLSEFDRQEDDIHLVTLCVTELNDR
Retrocopy TKAEVLLIMNSIKSFSNPSQCERLEVHLVGGFSDDRQLSQKLTHQLLSEFDRQEDDIHLVTLCVTELNDR

Parental  EENEKHFPIIYGIAVNIKTAEIYRASFQDRGPEEELRAARALTGGPMISIYDAKTEQLRIGPYYWMPFPH
          E.NEKHFPIIYGIAVNIKTAEIYRASFQDRGP.EEL.AARALTGGPMISIYD.KTEQLRIGPYYWMPFPH
Retrocopy EGNEKHFPIIYGIAVNIKTAEIYRASFQDRGPQEELHAARALTGGPMISIYDVKTEQLRIGPYYWMPFPH

Parental  VDFWLQQDDKEILENLSTSPLAEPSHFVDHIRSTLMFLKKYPSPTDTLFPGNKALLY-KKNEDGLWEKIS
          VDFWLQQDDKEILENLST.PL..PSHFVDHIRSTL.F.K.YPSPT..LFPGNKALLY....EDGLWEKIS
Retrocopy VDFWLQQDDKEILENLSTLPLTKPSHFVDHIRSTLIF*KNYPSPTNMLFPGNKALLY>XXXEDGLWEKIS

Parental  SPGS
          SPGS
Retrocopy SPGS

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	54.65 RPM
SRP012922_cerebellum	0.27 RPM	29.28 RPM
SRP012922_heart	0.23 RPM	41.30 RPM
SRP012922_kidney	0.82 RPM	47.91 RPM
SRP012922_liver	1.08 RPM	47.06 RPM
SRP012922_lung	1.99 RPM	99.42 RPM
SRP012922_quadricep_muscle	2.42 RPM	91.22 RPM
SRP012922_spleen	4.46 RPM	149.94 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_97 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 10 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000003857	1 retrocopy	retro_acar_62,
Choloepus hoffmanni	ENSCHOG00000011818	3 retrocopies	retro_chof_1148, retro_chof_1591, retro_chof_2046,
Dasypus novemcinctus	ENSDNOG00000016017	5 retrocopies	retro_dnov_1068, retro_dnov_1159, retro_dnov_129, retro_dnov_874, retro_dnov_97 ,
Echinops telfairi	ENSETEG00000014054	1 retrocopy	retro_etel_1914,
Microcebus murinus	ENSMICG00000014995	2 retrocopies	retro_mmur_1479, retro_mmur_959,
Myotis lucifugus	ENSMLUG00000003455	1 retrocopy	retro_mluc_1398,
Mustela putorius furo	ENSMPUG00000014327	1 retrocopy	retro_mputfur_762,
Otolemur garnettii	ENSOGAG00000002538	2 retrocopies	retro_ogar_706, retro_ogar_78,
Pteropus vampyrus	ENSPVAG00000002982	1 retrocopy	retro_pvam_626,
Tupaia belangeri	ENSTBEG00000014096	2 retrocopies	retro_tbel_3921, retro_tbel_905,