RetrogeneDB ID: retro_dnov_783

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_107063:3601..4081(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSDNOG00000016055
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: TWSG1
• Ensembl ID: ENSDNOG00000002791
• Aliases: None
• Description: twisted gastrulation homolog 1 (Drosophila) [Source:HGNC Symbol;Acc:12429]

Sequence

>retro_dnov_783
GAGCTCTGCCAGTGCTGCAGGGACAATGATATTGTTACTGTTGTAAAGTGTGTGCTTTGTCTAGGTACTCTTTGGAATGA
GTGCTGTGACTGCATTAGTATGTGCAATCCTCTAAATGACAGTGACACACCTCCAACTTCCAAGAGCACCATGGAGGAGC
TGCATGAGTCAATCCCTTCTCTCTCCTGGGCACTCACAGAAGACACACAGTTGAACTGGAACATCATTTCCTTTCCTTTT
GCAGAATTACTTTCACATCATGAAAATCTGCTTTCCTTTTTGGAAAGTGAACCCACCACATCATCAAATGTGTCTATTCC
TGGCAACCATGTCCAGGCACCTTATTCCAGTGACAAAGAGCACATGTGCACTGTGAATTATTTCGACGACTGCATATCTA
TACATCAGTGTAAAATATTCTGTAAGTCCATGGGGGCCTCCAAGAACTGCCAGGTCTATAATGTCTGCTGTGATTGCATC

Alignment

ORF - retro_dnov_783 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.2 %
• Parental protein coverage: 89.5 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ELCQ-CRPGEGNCSCCKECMLCLGTLWDECCDCVGMCNPRNYSDTPPTSKSTVEELHEPIPSLFRALTEG
          ELCQ.CR...........C.LCLGTLW.ECCDC..MCNP.N.SDTPPTSKST.EELHE.IPSL..ALTE.
Retrocopy ELCQCCR--DNDIVTVVKCVLCLGTLWNECCDCISMCNPLNDSDTPPTSKSTMEELHESIPSLSWALTE-

Parental  DTQLNWNIVSFPVAEELSHHENLVSFLETVNQPHHQNVSIPGNNVHAPYSSDKXXXXXXXXXXXXXXXHQ
          DTQLNWNI.SFP.AE.LSHHENL.SFLE........NVSIPGN.V.APYSSDK...............HQ
Retrocopy DTQLNWNIISFPFAELLSHHENLLSFLES-EPTTSSNVSIPGNHVQAPYSSDKEHMCTVNYFDDCISIHQ

Parental  CK-SCESMGASKYRWFHNACCECI
          CK..C.SMGASK.....N.CC.CI
Retrocopy CKIFCKSMGASKNCQVYNVCCDCI

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	23.92 RPM
SRP012922_cerebellum	0.27 RPM	10.45 RPM
SRP012922_heart	0.00 RPM	4.64 RPM
SRP012922_kidney	0.00 RPM	6.02 RPM
SRP012922_liver	0.00 RPM	4.49 RPM
SRP012922_lung	0.00 RPM	13.75 RPM
SRP012922_quadricep_muscle	0.00 RPM	7.10 RPM
SRP012922_spleen	0.00 RPM	10.99 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_783 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000002791	1 retrocopy	retro_dnov_783 ,
Equus caballus	ENSECAG00000018189	1 retrocopy	retro_ecab_283,