RetrogeneDB ID: retro_dnov_2681

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_9794:96022..96466(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C15orf41
• Ensembl ID: ENSDNOG00000014422
• Aliases: None
• Description: chromosome 15 open reading frame 41 [Source:HGNC Symbol;Acc:26929]

Sequence

>retro_dnov_2681
CCAGATGCAGTTCTAGCAGATCAGCTCTATCAGTGCATTGTGCGTGGCAGCTGTATGGACCACTGGTGGACTGCATCAAA
TGTGCCATTGGACATGAGCATGAAGTCTGCTGCAAGATTATTTTAGAGCCAAAATCTGTCCCTCCCTAGATGAAGAGCAG
CTCCCATGCAAAGGATTATGACAAAAACACCAGACTTTTATTTGACAAAGTATCAGTTGCTGTAGAAGGGCATACAACTC
AATGGATTGAAAACAAAGACTCATTTGATGAATGCAGCCACCACACCTACCCGCAGAACCCAGTTATGGAGCTATTGGAA
TAAGTTGGGGTCAGACTTGGTCATCTATTGATTTATCCAGGAGCTGTTCTGTAAACAGGAGAGGGGCATCCTGCTCACAG
TCTGTGTCTGTGTGGACATTGCCACCTTATGCCCTGGCTTAGCT

Alignment

ORF - retro_dnov_2681 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.65 %
• Parental protein coverage: 85.23 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  PDGVLANQVYQCIVNDCC-YGPLVDCIKHAIGHEHEV-LLRDLLLEKNLSFLDEDQLRAKG-YDKTPDFI
          PD.VLA.Q.YQCIV...C.YGPLVDCIK.AIGHEHEV.LL.D....K....LDE.QL..KG.YDK.....
Retrocopy PDAVLADQLYQCIVRGSC<YGPLVDCIKCAIGHEHEV<LLQDYFRAKICPSLDEEQLPCKG>YDKNTRLL

Parental  L-QVPVAVEGHIIHWIESKASFGDECSHHAYLHD-QFWSYWNRFGPGLVIYWYGFIQELDCNRERGILLK
          ...V.VAVEGH...WIE.K.SF.DECSHH.Y....Q.WSYWN..G..LVIY...FIQEL.C..ERGILL.
Retrocopy FDKVSVAVEGHTTQWIENKDSF-DECSHHTYPQN>QLWSYWNKLGSDLVIY*--FIQELFCKQERGILLT

Parental  ACFPTDIVTLCHSLA
          .C...DI.TLC..LA
Retrocopy VCVCVDIATLCPGLA

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	1.75 RPM
SRP012922_cerebellum	0.00 RPM	1.10 RPM
SRP012922_heart	0.00 RPM	6.96 RPM
SRP012922_kidney	0.00 RPM	2.74 RPM
SRP012922_liver	0.00 RPM	0.62 RPM
SRP012922_lung	0.00 RPM	1.53 RPM
SRP012922_quadricep_muscle	0.00 RPM	1.90 RPM
SRP012922_spleen	0.00 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_2681 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000014422	1 retrocopy	retro_dnov_2681 ,
Monodelphis domestica	ENSMODG00000001293	1 retrocopy	retro_mdom_1279,
Oryctolagus cuniculus	ENSOCUG00000016099	1 retrocopy	retro_ocun_1574,
Otolemur garnettii	ENSOGAG00000006789	1 retrocopy	retro_ogar_3224,