RetrogeneDB ID: retro_dnov_2193

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_54372:2031..2450(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZBTB8OS
• Ensembl ID: ENSDNOG00000001861
• Aliases: None
• Description: zinc finger and BTB domain containing 8 opposite strand [Source:HGNC Symbol;Acc:24094]

Sequence

>retro_dnov_2193
GTCGAGGCCAAGTATCCTCCAGTCACTCATCCAGCTGGTGTCCAGCTCCATGCATGGGGGATACGCTGGAGGAAGCATTG
AGCAGTGTGCAGTGGCCATGTTTGGTTACATGACAGATACTGGGACTGGTGAGCCCCTTCAAACAGTAGAAGTAGAAACC
CAAGGAGATGACTTACGTCTCCTCTGTTCCACTTCTTGGAGGAGTGGCTTTATAAGTTCAGTGCCGATGAGTTCTTTATA
CCCCGGGAAGTGAAAGTGCTCAGTATTGATCAAAGAAATTTCAAATCACGGTCAGTTGGGTGGAGAGAAGAGTTTCCATT
GTCCCAGCACCCCAGGGAACTGAAGTCAAGGCAATAACATATTCAGCAATGCAGATCTATAGTGAAGAGAAGCCAGAAGT
TTTTGTGATCGTTGACATT

Alignment

ORF - retro_dnov_2193 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.07 %
• Parental protein coverage: 80.11 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  VSRKYEYLDHTADVQLHAWG-NTLEEAF-EQCAMAMFGYMTDTGTVEPFQTVEVETQGDDLQSL-LFHFL
          V..KY....H.A.VQLHAWG..TLEEA..EQCA.AMFGYMTDTGT.EP.QTVEVETQGDDL..L.LFHFL
Retrocopy VEAKYPPVTHPAGVQLHAWG<DTLEEAL<EQCAVAMFGYMTDTGTGEPLQTVEVETQGDDLRLL<LFHFL

Parental  DEWLYKFSADEFFIPREVKVLSIDQRNFKLRSIGWGEEFSLSKH-PQGTEVKAITYSAMQIYSEEKPEVF
          .EWLYKFSADEFFIPREVKVLSIDQRNFK.RS.GW.EEF.LS.H.PQGTEVKAITYSAMQIYSEEKPEVF
Retrocopy EEWLYKFSADEFFIPREVKVLSIDQRNFKSRSVGWREEFPLSQH<PQGTEVKAITYSAMQIYSEEKPEVF

Parental  VIIDI
          VI.DI
Retrocopy VIVDI

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	0.58 RPM	26.06 RPM
SRP012922_cerebellum	1.65 RPM	14.57 RPM
SRP012922_heart	0.23 RPM	12.30 RPM
SRP012922_kidney	0.55 RPM	21.63 RPM
SRP012922_liver	0.62 RPM	19.51 RPM
SRP012922_lung	0.15 RPM	12.83 RPM
SRP012922_quadricep_muscle	0.17 RPM	13.33 RPM
SRP012922_spleen	0.00 RPM	17.86 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_2193 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 16 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000010550	1 retrocopy	retro_cfam_2152,
Choloepus hoffmanni	ENSCHOG00000004061	2 retrocopies	retro_chof_1005, retro_chof_1158,
Cavia porcellus	ENSCPOG00000015349	2 retrocopies	retro_cpor_356, retro_cpor_903,
Dasypus novemcinctus	ENSDNOG00000001861	2 retrocopies	retro_dnov_1056, retro_dnov_2193 ,
Equus caballus	ENSECAG00000020982	1 retrocopy	retro_ecab_610,
Felis catus	ENSFCAG00000000700	1 retrocopy	retro_fcat_703,
Homo sapiens	ENSG00000176261	2 retrocopies	retro_hsap_2396, retro_hsap_2992,
Gorilla gorilla	ENSGGOG00000007519	2 retrocopies	retro_ggor_2072, retro_ggor_231,
Myotis lucifugus	ENSMLUG00000000745	5 retrocopies	retro_mluc_1961, retro_mluc_2533, retro_mluc_2570, retro_mluc_2617, retro_mluc_2622,
Macaca mulatta	ENSMMUG00000009939	1 retrocopy	retro_mmul_1915,
Monodelphis domestica	ENSMODG00000017419	2 retrocopies	retro_mdom_400, retro_mdom_901,
Mus musculus	ENSMUSG00000057572	1 retrocopy	retro_mmus_2631,
Oryctolagus cuniculus	ENSOCUG00000000940	1 retrocopy	retro_ocun_492,
Otolemur garnettii	ENSOGAG00000011630	1 retrocopy	retro_ogar_3231,
Pongo abelii	ENSPPYG00000001589	2 retrocopies	retro_pabe_13, retro_pabe_2478,
Tursiops truncatus	ENSTTRG00000014968	1 retrocopy	retro_ttru_1200,