RetrogeneDB ID: retro_dnov_1578

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_23901:2884..3385(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C8orf33
• Ensembl ID: ENSDNOG00000015805
• Aliases: None
• Description: chromosome 8 open reading frame 33 [Source:HGNC Symbol;Acc:26104]

Sequence

>retro_dnov_1578
GATACAACCTCTAAGAAGCAAAAGAAGAAGAAAACCCAGAATGGGGGCCTCTGTGGCCAAAGGAGGTAGGAAGGCCTCAG
AAAAGCCCACCCCAAAGGAGCTCCAAGTGCTAAGACCCAAGCCTCAGGCAAGAAAGGTGGAGCAGCTGGCCCAGGAACTA
TGCTGGTGTGTGGAGGAGCTCAAGTTCAGTCTCCAGATTCAGACACCCAATCCAAAACAAAAAGAGCAGGCTATTGAGGC
AATCAGACCCTATGCAGCGAAAGAAACCCCTGCCCTCAAAGAAGCAGTTGATGTGTTCCTTGTCTGGGAACTACAGAGCT
CAGATGGATGCAAAACCGAGGAGACCCTGCAGGCTTTCAGGACCATAGGCTACTCAGCCGAGGTGAAGCCTGTGATTGAG
GCTACAGAAAGAAGAGGTGAAGGGTCTGTAGGCCTCGCTCAATGGGGGCAGCCAAGGTCATCCTGGACTCTCCTGATGAA
GAGTTTAGGTTCAATTTCTTT

Alignment

ORF - retro_dnov_1578 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.77 %
• Parental protein coverage: 70.39 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  DAASKKQKKKKKTRD-GASVADGGGKASEKLVPEE--PLSAEAQAEQLAQ---ELAWCVEQLQLGLRTQR
          D..SKKQKK.KKT...GASVA.GG.KASEK..P.E...L....QA....Q...EL.WCVE.L...L..Q.
Retrocopy DTTSKKQKK-KKTQN>GASVAKGGRKASEKPTPKELQVLRPKPQARKVEQLAQELCWCVEELKFSLQIQT

Parental  PSPKQKEQATGAIR-TLLSERT-PLPRKRQLMRSLFGDYRTQMEAERR-ETLQALRAAAHSSQVKPVSKA
          P.PKQKEQA..AIR.TL.SER..PLP.K.QLM.SL.G.YR.QM.A..R.ETLQA.R....S..VKPV..A
Retrocopy PNPKQKEQAIEAIR<TLCSERN<PLPSKKQLMCSLSGNYRAQMDAKPR<ETLQAFRTIGYSAEVKPVIEA

Parental  A-RKKSRRVCRPRPVGAVTAILDTPNEEFRFNFF
          ..RKK..RVCRPR..GA...ILD.P.EEFRFNFF
Retrocopy T<RKKR*RVCRPRSMGAAKVILDSPDEEFRFNFF

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	12.64 RPM
SRP012922_cerebellum	0.00 RPM	6.05 RPM
SRP012922_heart	0.00 RPM	5.10 RPM
SRP012922_kidney	0.00 RPM	18.34 RPM
SRP012922_liver	0.00 RPM	4.95 RPM
SRP012922_lung	0.00 RPM	15.27 RPM
SRP012922_quadricep_muscle	0.00 RPM	6.23 RPM
SRP012922_spleen	0.00 RPM	13.96 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_1578 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000015805	3 retrocopies	retro_dnov_1578 , retro_dnov_406, retro_dnov_521,
Macaca mulatta	ENSMMUG00000016084	1 retrocopy	retro_mmul_1436,
Monodelphis domestica	ENSMODG00000028791	2 retrocopies	retro_mdom_1056, retro_mdom_388,
Mustela putorius furo	ENSMPUG00000005972	1 retrocopy	retro_mputfur_1096,
Rattus norvegicus	ENSRNOG00000034107	1 retrocopy	retro_rnor_436,