RetrogeneDB ID: retro_dnov_1037

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_13912:415..669(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNHIT3
• Ensembl ID: ENSDNOG00000011745
• Aliases: None
• Description: zinc finger, HIT-type containing 3 [Source:HGNC Symbol;Acc:12309]

Sequence

>retro_dnov_1037
GATGACTCATCTATAGCTGATTTTATCAATAATGATGAAGAGGAGGACACAGTGTCACCGAATTTAAAGACTCTGGGGGA
ATCTAGAACTTTAGGAAGCTTATTACTCAATCCACACGTAGACTGTTGATGCTCAGCCTCACTCAGGGTGACAACAAAGC
ACAGCTCCTGAGAGCTGATATGTAAGAATCCTTGTTTGTGGAGTTTGTGGACTACTGTTTAAGTATTGTGGAACCTACCC
AAAATGAGTCTTCT

Alignment

ORF - retro_dnov_1037 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.52 %
• Parental protein coverage: 55.48 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DDLSIADFLSSDEEEDRVSLXXXXXXXESATLRSLLLNPHL-RQLMVNLDQGDNKAKLMRAYMQEPLFVE
          DD.SIADF...DEEED.VS........ES.TL.SLLLNPH..R.LM..L.QGDNKA.L.RA.M.E.LFVE
Retrocopy DDSSIADFINNDEEEDTVS-PNLKTLGESRTLGSLLLNPHV<RLLMLSLTQGDNKAQLLRADM*ESLFVE

Parental  FADCCLSIVEPAQNVSS
          F.D.CLSIVEP.QN.SS
Retrocopy FVDYCLSIVEPTQNESS

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	6.03 RPM
SRP012922_cerebellum	0.00 RPM	9.21 RPM
SRP012922_heart	0.00 RPM	5.34 RPM
SRP012922_kidney	0.00 RPM	7.94 RPM
SRP012922_liver	0.00 RPM	4.80 RPM
SRP012922_lung	0.00 RPM	9.47 RPM
SRP012922_quadricep_muscle	0.00 RPM	5.02 RPM
SRP012922_spleen	0.00 RPM	10.64 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_1037 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000012672	1 retrocopy	retro_btau_1218,
Dasypus novemcinctus	ENSDNOG00000011745	1 retrocopy	retro_dnov_1037 ,
Echinops telfairi	ENSETEG00000018407	1 retrocopy	retro_etel_1415,
Myotis lucifugus	ENSMLUG00000013155	1 retrocopy	retro_mluc_1100,
Macaca mulatta	ENSMMUG00000007918	1 retrocopy	retro_mmul_938,