RetrogeneDB ID: retro_dnov_1712

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_27243:8199..8837(-)
• 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_1712
GATGCCTTGGAGCTGCATAAGAATGCAATTGGGAAAGCTGGCTACACTGACAAGGTGGTGACTGGCATGAACATTACTGC
CTCTGAGTTCTTCAGGTCTGGGAAATATGACCTGGACTTAAAGTCTCCTGATGACTCCAGCAGGTACATCACTCCTAACA
AATCAGCAGACCTGTATGAGCCCTTCATCAAGGACTACTTAGTGGAGTTCTTCGAAGACCCCTTTGACCAGGATGACTGG
GAAACGTGGAAGAATTTCACCACCAGTGCAGGAATCCTGGTGGTGGAGATGACCTCACAGTGACCAACACAAAGCAGATC
GCCAAGGCCATGAGGGAGAAGTCATGCAACTGCCCCTTGCTCAAAGTGAACCAGACTGGCTCTGTGACCGAGTCCCTACA
GGTGTACAAGCTGGCCGAGTCCAACAGGTGGGGTATCACGGTGTCTCACCCCTCGGGGGAGACTGAAGACACCTTCACTG
CTGACCTGGTGGTAGGGTTCTGCACTGGACAGATCAAGACGGGCACACCTTGCCAGTCTGAGCACTTGGCCAAGTACAAC
CAGCTCCTCAGAACTGAAGAGGAACTGGGCAGCAAGGCTAAGTTTGCTGGCAGGCAGTTCTGAAATCCCCTAGCCAAG

Alignment

ORF - retro_dnov_1712 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.22 %
• Parental protein coverage: 57.1 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EALELLKTAIQAAGYPDKVVIGMDVAASEFYRNGKYDLDFKSPDDPARHISGEKLGDLYKSFIKNYPVVS
          .ALEL.K.AI..AGY.DKVV.GM...ASEF.R.GKYDLD.KSPDD..R.I...K..DLY..FIK.Y.V..
Retrocopy DALELHKNAIGKAGYTDKVVTGMNITASEFFRSGKYDLDLKSPDDSSRYITPNKSADLYEPFIKDYLVEF

Parental  IEDPFDQDDWATWTSFLTGVNIQIV-GDDLTVTNPKRIAQAVEKKACNCLLLKVNQIGSVTESIQACKLA
          .EDPFDQDDW.TW..F.T...I..V.GDDLTVTN.K.IA.A...K.CNC.LLKVNQ.GSVTES.Q..KLA
Retrocopy FEDPFDQDDWETWKNFTTSAGILVV<GDDLTVTNTKQIAKAMREKSCNCPLLKVNQTGSVTESLQVYKLA

Parental  QSNGWGVMVSHRSGETEDTFIADLVVGLCTGQIKTGAPCRSERLAKYNQLMRIEEALGNKAVFAGRKFRN
          .SN.WG..VSH.SGETEDTF.ADLVVG.CTGQIKTG.PC.SE.LAKYNQL.R.EE.LG.KA.FAGR.F.N
Retrocopy ESNRWGITVSHPSGETEDTFTADLVVGFCTGQIKTGTPCQSEHLAKYNQLLRTEEELGSKAKFAGRQF*N

Parental  PKAK
          P.AK
Retrocopy PLAK

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	0.15 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_1712 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,