RetrogeneDB ID: retro_dnov_2474

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_78513:4914..5126(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BOLA3
• Ensembl ID: ENSDNOG00000008309
• Aliases: None
• Description: bolA homolog 3 (E. coli) [Source:HGNC Symbol;Acc:24415]

Sequence

>retro_dnov_2474
ATAGCATTTTTGGGCCCAGCCAAAGCATCACCTCTGCTCTGTGGGAACTTTGGGCATCCTCTTCTTCCCTCCAGACATTG
AATGTTTGCCTGCCAGACTGAGAGTGAGCTCAAGGTGACCCAAATTCTCAAAGAAAAATTTCCTGGAGCAACAAGTTCAA
AGTCAATGACAATTCAGGGGGCTGTGGGGTGATGTATGAAATAAAAATCAAA

Alignment

ORF - retro_dnov_2474 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.06 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAAWGPAAAAPLLRGIRGLPLLHSGHRMFASQTEGELKVTQILKEKFPRATT-IKVTDISEGCGAMYEIK
          .A..GPA.A.PLL.G..G.PLL.S.H.MFA.QTE.ELKVTQILKEKFP.AT...KV.D.S.GCG.MYEIK
Retrocopy IAFLGPAKASPLLCGNFGHPLLPSRH*MFACQTESELKVTQILKEKFPGATS<FKVNDNSGGCGVMYEIK

Parental  IE
          I.
Retrocopy IK

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	0.39 RPM	4.47 RPM
SRP012922_cerebellum	0.96 RPM	1.24 RPM
SRP012922_heart	0.00 RPM	5.80 RPM
SRP012922_kidney	0.27 RPM	1.92 RPM
SRP012922_liver	0.46 RPM	2.63 RPM
SRP012922_lung	2.29 RPM	2.44 RPM
SRP012922_quadricep_muscle	0.52 RPM	2.42 RPM
SRP012922_spleen	0.69 RPM	3.09 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_2474 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 11 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000008739	1 retrocopy	retro_cfam_1574,
Callithrix jacchus	ENSCJAG00000017844	1 retrocopy	retro_cjac_1112,
Dasypus novemcinctus	ENSDNOG00000008309	2 retrocopies	retro_dnov_2474 , retro_dnov_510,
Myotis lucifugus	ENSMLUG00000016364	1 retrocopy	retro_mluc_1407,
Mustela putorius furo	ENSMPUG00000007813	1 retrocopy	retro_mputfur_1519,
Mus musculus	ENSMUSG00000045160	1 retrocopy	retro_mmus_1648,
Oryctolagus cuniculus	ENSOCUG00000016658	1 retrocopy	retro_ocun_51,
Otolemur garnettii	ENSOGAG00000003502	1 retrocopy	retro_ogar_1839,
Sorex araneus	ENSSARG00000001754	1 retrocopy	retro_sara_83,
Sus scrofa	ENSSSCG00000008291	1 retrocopy	retro_sscr_750,
Tursiops truncatus	ENSTTRG00000006698	3 retrocopies	retro_ttru_1149, retro_ttru_1493, retro_ttru_254,