RetrogeneDB ID: retro_dnov_2226

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_56942:41005..41566(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MOB1A
• Ensembl ID: ENSDNOG00000012838
• Aliases: None
• Description: MOB kinase activator 1A [Source:HGNC Symbol;Acc:16015]

Sequence

>retro_dnov_2226
AAACATGCAGAAGCAACTCTTGGAAGTGGGAATCTGAGACAAGCCGTTATGTTGCCAGAGGGAGAGGACCTTAATGAATG
GATAGCTGTTAACACTGTGCATTTCTTCAACCAGATCAACATGTTGTATGCAACTATTACGGAATTCTGCACTGAAGCAA
GCTGTTCAGTCGTGTCTGCAGGTCCATGATATGAATATCATTGGGCTGATGGTACTAATATTAAAAAGCCCATCAAATGT
TCTGCTCCAAAATACACTGACTATTTGATGACTTGGGTTCAGGATCAGCTCGATGATGAAACGCTTTTTCCTGCTAAGAT
TGGTGTCCCATTTCCCAAAAACTTGATGTCTGTGGCAAAGCCTACTCTAAAGCATCTCTTTAGGGTTTATGTCCATGTTT
ATCACCAGCACTTTGATTCTGTGATGCAGCTGCAAGAGGAGGCCCACCTCAACACCTCCTTTAAGCACTTTATTTTCTTT
GCTCAGGAGTTTAATCTGACTGATAGGCGTGAATTGACACCTCTTCAGGAATTAATTGAGAAGCCTGGATCAGAAGACAG
A

Alignment

ORF - retro_dnov_2226 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.17 %
• Parental protein coverage: 88.63 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KHAEATLGSGNLRQAVMLPEGEDLNEWIAVNTVDFFNQINMLYGTITEFCTEASCPVMSAGPRYEYHWAD
          KHAEATLGSGNLRQAVMLPEGEDLNEWIAVNTV.FFNQINMLY.TITEFCTEASC.V.SAGP.YEYHWAD
Retrocopy KHAEATLGSGNLRQAVMLPEGEDLNEWIAVNTVHFFNQINMLYATITEFCTEASCSVVSAGP*YEYHWAD

Parental  GTNIKKPIKCSAPKYIDYLMTWVQDQLDDETLFPSKIXXXXXXNFMSVAKTILKRLFRVYAHIYHQHFDS
          GTNIKKPIKCSAPKY.DYLMTWVQDQLDDETLFP.KI......N.MSVAK..LK.LFRVY.H.YHQHFDS
Retrocopy GTNIKKPIKCSAPKYTDYLMTWVQDQLDDETLFPAKIGVPFPKNLMSVAKPTLKHLFRVYVHVYHQHFDS

Parental  VMQLQEEAHLNTSFKHFIFFVQEFNLIDRRELAPLQELIEKLGSKDR
          VMQLQEEAHLNTSFKHFIFF.QEFNL.DRREL.PLQELIEK.GS.DR
Retrocopy VMQLQEEAHLNTSFKHFIFFAQEFNLTDRRELTPLQELIEKPGSEDR

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	0.78 RPM	18.67 RPM
SRP012922_cerebellum	0.14 RPM	2.89 RPM
SRP012922_heart	0.23 RPM	1.62 RPM
SRP012922_kidney	0.00 RPM	1.37 RPM
SRP012922_liver	0.15 RPM	3.56 RPM
SRP012922_lung	0.61 RPM	16.04 RPM
SRP012922_quadricep_muscle	0.00 RPM	2.08 RPM
SRP012922_spleen	1.26 RPM	26.55 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_2226 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 8 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017359	1 retrocopy	retro_amel_1889,
Canis familiaris	ENSCAFG00000008735	1 retrocopy	retro_cfam_2054,
Dasypus novemcinctus	ENSDNOG00000012838	3 retrocopies	retro_dnov_1948, retro_dnov_2226 , retro_dnov_337,
Echinops telfairi	ENSETEG00000018245	1 retrocopy	retro_etel_425,
Macaca mulatta	ENSMMUG00000015208	2 retrocopies	retro_mmul_1299, retro_mmul_297,
Mustela putorius furo	ENSMPUG00000007824	2 retrocopies	retro_mputfur_754, retro_mputfur_770,
Otolemur garnettii	ENSOGAG00000003504	1 retrocopy	retro_ogar_2688,
Rattus norvegicus	ENSRNOG00000042657	2 retrocopies	retro_rnor_2544, retro_rnor_2545,