RetrogeneDB ID: retro_dnov_75

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_1292:6220..6784(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENO3
• Ensembl ID: ENSDNOG00000011654
• Aliases: None
• Description: enolase 3 (beta, muscle) [Source:HGNC Symbol;Acc:3354]

Sequence

>retro_dnov_75
GTGTGTAAGGCAGGTGCAGCCAAGAAGGGGATCCAGCTTTCGTGGCACATCGCAGATCTTCCTGGGAACCAGATTCCGTA
CTCCCAGTGGCTATCTTCCCGTGGGATCAACACCGGATCCTGTGCTGGAAACAAGCGGCCAATCAGGAGTTCACAGCTCT
GCCCATGGGCACCAGCTCCTTCTCGGAGGCCATGCACATGGGTGCTGAGCTCTACCACCACCTCAACGGGGTCATCAAGG
CCCACACGGGAAGGATGCCACCAACGTGGGTGTTGGGGCGACTTCACACTGGCCGTGCTGGAGAACGAAGCCCTGGGCTG
CTGAAGACGGCCACCCAGGCAGCGGGTCACCCGAACAATGTGGTGATCAGCTCAGACATGGCAGCTTCTGGGTTTGTTGG
AATGGGAAGTACGACCTTGACTTTGTGTCGCCTGGTGGCCCCACGTGCTACATCACTGGGGAGAGACTGGGGAGCTGTAC
AAGAGCTTCATCAAGAGCTACCCTGTGGTCAGCATCGAGGGAAACCTGTAACGGAATGAGTGGGCCTCATTCCTCACAGG
GTTG

Alignment

ORF - retro_dnov_75 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.37 %
• Parental protein coverage: 52.01 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 8

Retrocopy - Parental Gene Alignment:

Parental  VCKAGAAEKGVPLYRHIADLAGN-PDLVLPVPAF-NVINGGSHAGNK-LAMQEFMILPVGASSFKEAMRI
          VCKAGAA.KG..L..HIADL.GN.PD.VLPV..F...IN.GS.AGNK..A.QEF..LP.G.SSF.EAM..
Retrocopy VCKAGAAKKGIQLSWHIADLPGN<PDSVLPVAIF>RGINTGSCAGNK<AANQEFTALPMGTSSFSEAMHM

Parental  GAEVYHHLKGVIKA-KYGKDATNVGDE-GGFAPNILENNEAL-ELLKTAIQAAGYPDKVVIGMDVAASEF
          GAE.YHHL.GVIKA...GKDATNVG...G.F....LE.NEAL..LLKTA.QAAG.P..VVI..D.AAS.F
Retrocopy GAELYHHLNGVIKA<PHGKDATNVGVG<GDFTLAVLE-NEAL<GLLKTATQAAGHPNNVVISSDMAASGF

Parental  YR-NGKYDLDFKSPDDPARHISGEKL-GDLYKSFIKNYPVVSIEDPFDQDDWATWTSFLTGV
          ...NGKYDLDF.SP..P...I.GE.L.G.LYKSFIK.YPVVSIE.......WA...SFLTG.
Retrocopy VG<NGKYDLDFVSPGGPTCYITGERL<GELYKSFIKSYPVVSIEGNL*RNEWA---SFLTGL

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	23.73 RPM
SRP012922_cerebellum	0.00 RPM	17.18 RPM
SRP012922_heart	0.00 RPM	1074.31 RPM
SRP012922_kidney	0.00 RPM	9.86 RPM
SRP012922_liver	0.00 RPM	2.94 RPM
SRP012922_lung	0.00 RPM	52.23 RPM
SRP012922_quadricep_muscle	0.00 RPM	4677.95 RPM
SRP012922_spleen	0.00 RPM	8.47 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_75 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 6 parental genes, and 42 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000011679	2 retrocopies	retro_cjac_115, retro_cjac_177,
Dasypus novemcinctus	ENSDNOG00000011654	2 retrocopies	retro_dnov_1712, retro_dnov_75 ,
Macropus eugenii	ENSMEUG00000007915	25 retrocopies	retro_meug_1019, retro_meug_1341, retro_meug_1483, retro_meug_1540, retro_meug_1566, retro_meug_1605, retro_meug_170, retro_meug_1701, retro_meug_1743, retro_meug_1869, retro_meug_1905, retro_meug_1929, retro_meug_2026, retro_meug_2190, retro_meug_235, retro_meug_269, retro_meug_578, retro_meug_607, retro_meug_637, retro_meug_803, retro_meug_820, retro_meug_906, retro_meug_965, retro_meug_973, retro_meug_976,
Rattus norvegicus	ENSRNOG00000004078	1 retrocopy	retro_rnor_2228,
Tupaia belangeri	ENSTBEG00000002346	5 retrocopies	retro_tbel_1514, retro_tbel_3080, retro_tbel_3130, retro_tbel_4230, retro_tbel_4383,
Tarsius syrichta	ENSTSYG00000007066	7 retrocopies	retro_tsyr_1019, retro_tsyr_1157, retro_tsyr_1626, retro_tsyr_1917, retro_tsyr_2043, retro_tsyr_52, retro_tsyr_534,