RetrogeneDB ID: retro_dnov_874

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_11685:11789..12265(+)
• Located in intron of: None

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_874
GGTAATGGGGCTACCTGCTTGACACATTGTGATGGATCCGACACCAAAGCTGAGGTCCCCTTGATCATGAACTCCATAAA
ATCCTTTTCCAACCACTCTCAATGTGGAAGGCTGGAAGTACACCTCGTGGGAGGCTTCAGTGATGATAGGCATTTGTCAC
AAAAACTTACTCATCAACTTCTTAGTGAATTTGACAGACAAGATGATATTCACTTGGTGACATTATGTGTGACAGAATTA
AATGATCGAGAAGAAAATGAAAAACACTTTCCAATAATTTATGGCATTGCTGTCAACATTAAAACTGCAGAGATTACAGA
GCCTCCTTTCAAGATAGAGGTCCAGAGGAGGAGCTGCGTGCCGCGCGTGCTCTAACAGGAGGAACGATGATTAGCATATA
TGATGCAAAGACAGAACAACTTCGTATAGGACCATATTACTGGATGCCATTTCCCCATGTGGATTTCCGGTTGCAG

Alignment

ORF - retro_dnov_874 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.89 %
• Parental protein coverage: 51.78 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GNGATCLTHCDGSDTKAEVPLIMNSIKSFSNHSQCGRLEVHLVGGFSDDRQLSQKLTHQLLSEFDRQEDD
          GNGATCLTHCDGSDTKAEVPLIMNSIKSFSNHSQCGRLEVHLVGGFSDDR.LSQKLTHQLLSEFDRQ.DD
Retrocopy GNGATCLTHCDGSDTKAEVPLIMNSIKSFSNHSQCGRLEVHLVGGFSDDRHLSQKLTHQLLSEFDRQ-DD

Parental  IHLVTLCVTELNDREENEKHFPIIYGIAVNIKTAEI-YRASFQDRGPEEELRAARALTGGPMISIYDAKT
          IHLVTLCVTELNDREENEKHFPIIYGIAVNIKTAEI.YRASFQDRGPEEELRAARALTGG.MISIYDAKT
Retrocopy IHLVTLCVTELNDREENEKHFPIIYGIAVNIKTAEI<YRASFQDRGPEEELRAARALTGGTMISIYDAKT

Parental  EQLRIGPYYWMPFPHVDFWLQ
          EQLRIGPYYWMPFPHVDF.LQ
Retrocopy EQLRIGPYYWMPFPHVDFRLQ

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	4.47 RPM	54.65 RPM
SRP012922_cerebellum	1.92 RPM	29.28 RPM
SRP012922_heart	3.94 RPM	41.30 RPM
SRP012922_kidney	1.37 RPM	47.91 RPM
SRP012922_liver	1.86 RPM	47.06 RPM
SRP012922_lung	5.96 RPM	99.42 RPM
SRP012922_quadricep_muscle	4.50 RPM	91.22 RPM
SRP012922_spleen	8.58 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_874 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,