RetrogeneDB ID: retro_dnov_1486

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_21499:29796..30458(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRS2
• Ensembl ID: ENSDNOG00000006424
• Aliases: None
• Description: MRS2 magnesium transporter [Source:HGNC Symbol;Acc:13785]

Sequence

>retro_dnov_1486
CGGGAACTCCCCTCACAGTTGGCTGGAGAGGGCCAACTTGTCACGCACCCTCTACCTTTTGAGTTTAGAGCTCTAGACTC
ACGCCTGCAATACTGGACCAACAGTCTTGAGGGGAAACAGCATTTTGCAGCCCCTGATCTTTGAGGCATTGCAAGCTTTA
GTGGACCCCACACATTCTTCTGTAGACAAGCAAATTGCACATCTTACTACAAAATGGCAAAAGTCTGTCAGTTTCGAAAC
AGATACTAAAATTTCAAAGACTTGATTTTGGAGATCTTGGAAGAGTTGCTAGAAGAACTCTGTCTGACAAAATGGGGTGA
CCCAGAAGGCTTTGAGAAGAGCAGAACTGGAATTGACCATGCAGAAGGGATGGAGTTGCTATTGAAAACAACTACTGTTT
AGCTGAAGAGCTTTCCAGTGCAGCTCCAGAACTCAGGGTACTGATTGATGATTCACGAAGTGTTATCTTCATCAATCTGG
ACAGCCACCTTAATGTGGTGATGAGGTTGAATCTCCAGTTGACCACGGGAACCTTCTCTGTTTCGCTCTTTGGATTAATG
GAATTTGCTTTTGGAATGAATTTGGAATCTTCTCTTGAAGAGGGTCATAGAATATTTTGGCTGATCACTGGAATTATGTG
TATGGGAAGTGGCCCAATGTTT

Alignment

ORF - retro_dnov_1486 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.12 %
• Parental protein coverage: 51.51 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  QELPSQL--RGQLVTYP-PFEFRAIEALLQYWINT-LQGKLSILQPLILETLQALVDPTHSSVDRSKLHI
          .ELPSQL...GQLVT.P.PFEFRA....LQYW.N..L.G..SILQPLI.E.LQALVDPTHSSVD....H.
Retrocopy RELPSQLAGEGQLVTHPLPFEFRALDSRLQYWTNS>LRGN-SILQPLIFEALQALVDPTHSSVDKQIAHL

Parental  LLQNGKSLSELETDIK-TFKESILEILDEEELLEELCLTKWSDPEVFEKSSTGIDHAEEMELLL-ENYYR
          .....KS.S..ETD.K..FK..ILEIL..EELLEELCLTKW.DPE.FEKS.TGIDHAE.MELLL.EN.Y.
Retrocopy TTKWQKSVS-FETDTK<NFKDLILEIL--EELLEELCLTKWGDPEGFEKSRTGIDHAEGMELLL<ENNYC

Parental  LAEDLSNAARELRVLIDDSQSIIFINLDSHRNVMMRLNLQLTMGTFSVSLFGLMGVAFGMNLESSLEEDH
          LAE.LS.AA.ELRVLIDDS.S.IFINLDSH.NV.MRLNLQLT.GTFSVSLFGLM..AFGMNLESSLEE.H
Retrocopy LAEELSSAAPELRVLIDDSRSVIFINLDSHLNVVMRLNLQLTTGTFSVSLFGLMEFAFGMNLESSLEEGH

Parental  RIFWLITGIMFMGSGLMW
          RIFWLITGIM.MGSG.M.
Retrocopy RIFWLITGIMCMGSGPMF

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	4.47 RPM
SRP012922_cerebellum	0.00 RPM	4.12 RPM
SRP012922_heart	0.00 RPM	2.78 RPM
SRP012922_kidney	0.00 RPM	10.68 RPM
SRP012922_liver	0.00 RPM	6.04 RPM
SRP012922_lung	0.00 RPM	3.97 RPM
SRP012922_quadricep_muscle	0.00 RPM	7.44 RPM
SRP012922_spleen	0.11 RPM	3.78 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_1486 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 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000006424	1 retrocopy	retro_dnov_1486 ,
Equus caballus	ENSECAG00000013105	1 retrocopy	retro_ecab_1032,
Homo sapiens	ENSG00000124532	1 retrocopy	retro_hsap_4006,
Gorilla gorilla	ENSGGOG00000009098	1 retrocopy	retro_ggor_2689,
Macaca mulatta	ENSMMUG00000001018	2 retrocopies	retro_mmul_2312, retro_mmul_878,
Pongo abelii	ENSPPYG00000016278	1 retrocopy	retro_pabe_939,
Pan troglodytes	ENSPTRG00000017774	1 retrocopy	retro_ptro_2720,