RetrogeneDB ID: retro_dnov_674

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_751:85843..86154(+)
• Located in intron of: ENSDNOG00000012866

Retrocopy information

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

Parental gene information

• Parental gene symbol: MNF1
• Ensembl ID: ENSDNOG00000002019
• Aliases: None
• Description: mitochondrial nucleoid factor 1 [Source:HGNC Symbol;Acc:21237]

Sequence

>retro_dnov_674
TTTCCTGAGCTCTGTGAGGAATGGCTAATGGATGAGACCAAATGGGTCTGGGACTAGGTGCTCCCCCACAGTAGGGGGTA
GTACAGGCCTTTTGGGAGGGAGAGAGCACCAGATTGCAGAGCTGAGGGCCTATGATTAGAGGCATGAGAGCTTAACATGA
CTCCATTCCAACTATTACAAACCAAGTATCCTCACCTCAGAGACACATGCTTCAGTGGCCTGATGATGAGCCCCAGCTCA
TCCTGTCCACAGACACCTTGGAAGAGTTTAAGGAAATGAATAAAGACACGTGGAAGAAACTGCAGGAGAAG

Alignment

ORF - retro_dnov_674 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.13 %
• Parental protein coverage: 82.93 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  FLKLCEEWPVDETK-RGRDLGVDLRQRVAQAFREGENT-QIAEPEACDQMYESLARLHSNYYK-HKYPRP
          F..LCEEW..DETK..G..LG......V.QAF.EGE.T.QIAE..A.D...ESL..LHSNYYK..KYP..
Retrocopy FPELCEEWLMDETK<MGLGLGAPPQ*GVVQAFWEGEST<QIAELRAYD*RHESLT*LHSNYYK<TKYPHL

Parental  RDTSFSGLSV-EEYKLVLATDTKEFK---KDKMKKLQEK
          RDT.FSGL...E...........EFK...KD..KKLQEK
Retrocopy RDTCFSGLMM<EPQLILSTDTLEEFKEMNKDTWKKLQEK

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	35.20 RPM
SRP012922_cerebellum	0.41 RPM	27.36 RPM
SRP012922_heart	0.23 RPM	50.58 RPM
SRP012922_kidney	0.00 RPM	43.53 RPM
SRP012922_liver	0.00 RPM	17.49 RPM
SRP012922_lung	0.31 RPM	18.63 RPM
SRP012922_quadricep_muscle	0.17 RPM	52.27 RPM
SRP012922_spleen	0.11 RPM	25.18 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_674 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 9 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000031270	1 retrocopy	retro_cfam_1168,
Dasypus novemcinctus	ENSDNOG00000002019	1 retrocopy	retro_dnov_674 ,
Echinops telfairi	ENSETEG00000006979	2 retrocopies	retro_etel_1912, retro_etel_2009,
Macropus eugenii	ENSMEUG00000005278	3 retrocopies	retro_meug_1335, retro_meug_2027, retro_meug_337,
Monodelphis domestica	ENSMODG00000013996	1 retrocopy	retro_mdom_515,
Mustela putorius furo	ENSMPUG00000003032	1 retrocopy	retro_mputfur_511,
Mus musculus	ENSMUSG00000024208	2 retrocopies	retro_mmus_2543, retro_mmus_3376,
Otolemur garnettii	ENSOGAG00000015604	2 retrocopies	retro_ogar_2127, retro_ogar_2204,
Tupaia belangeri	ENSTBEG00000001380	6 retrocopies	retro_tbel_1486, retro_tbel_1573, retro_tbel_1754, retro_tbel_3269, retro_tbel_361, retro_tbel_994,