RetrogeneDB ID: retro_dnov_1842

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_32926:43133..43631(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSDNOG00000023812
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ZNF740
• Ensembl ID: ENSDNOG00000012901
• Aliases: None
• Description: zinc finger protein 740 [Source:HGNC Symbol;Acc:27465]

Sequence

>retro_dnov_1842
GCAAGTCTCCTGACTTGTGAAGACCTAGCAGGTATAATTTGGTTCCCACTGCAGTCAACAAGGAAATGATGCTGAGACCA
GACTGCCAGCAAGCTGGCCAAGAATGGCGAGCAGGCAGGTGGCCCTGATGTGCTGAGGTGCTCAAGTCAGGGCCACCAAA
ATGACAGTGATAACTCCCAGAGTCTCAAAGAAGATAACAACTTGGCCGAAGTCTCTCATTCAAAAAAAGACTATTAAAAA
AGGTGGTGGTAGTAGAACAAAATGATTCTTTTTCAAGTAAAGACTCTCAAAATTTTTACTTGTAAGTACTGCTTTGGGAG
ACTTTAGGAGCAGTTACCACCTCAAAAGTCACATCTTTATTCATACAGAAGAGAAGTCATTTGAGTGTCATATATGTGAT
ATGTGCTTTATCCAGAATTATCACCTGGAGTGCCTTAAACGTGTTGCACAGTGGGTGAAAGGCCTTACCAGGGTGAATGG
TGTTATCAGTGTTTTTCC

Alignment

ORF - retro_dnov_1842 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.19 %
• Parental protein coverage: 86.32 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 8

Retrocopy - Parental Gene Alignment:

Parental  ASLLACEGLAGV-SLVPTAASKKMML-SQIASKQAENGERAGSPDVLRCSSQGHRKDSDKSRSRKDEDSL
          ASLL.CE.LAG...LVPTA..K.MML..Q.ASK.A.NGE.AG.PDVLRCSSQGH..DSD.S.S.K....L
Retrocopy ASLLTCEDLAGI<NLVPTAVNKEMML>DQTASKLAKNGEQAGGPDVLRCSSQGHQNDSDNSQSLKEDNNL

Parental  AESSHS-KKTVK-KVVVVEQNGS-FQVKIPKNFICEHCFGA-FRSSYHLKKHILIHTGEKPFECDICDMR
          AE.SHS.KKT.K.KVVVVEQN.S.FQVK..K.F.C..CFG..FRSSYHLK.HI.IHT.EK.FEC.ICDM.
Retrocopy AEVSHS>KKTIK>KVVVVEQNDS>FQVKTLKIFTCKYCFGR>FRSSYHLKSHIFIHTEEKSFECHICDMC

Parental  FIQKYHLERHKRV-HS-GEKPYQCERCHQCFS
          FIQ.YHLE..KRV.HS.GE.PYQ.E.C.QCFS
Retrocopy FIQNYHLECLKRV>HS>GERPYQGEWCYQCFS

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	9.33 RPM
SRP012922_cerebellum	0.00 RPM	7.42 RPM
SRP012922_heart	0.00 RPM	2.32 RPM
SRP012922_kidney	0.00 RPM	3.56 RPM
SRP012922_liver	0.00 RPM	2.79 RPM
SRP012922_lung	0.00 RPM	9.16 RPM
SRP012922_quadricep_muscle	0.00 RPM	2.60 RPM
SRP012922_spleen	0.00 RPM	9.84 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_1842 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000012901	1 retrocopy	retro_dnov_1842 ,
Microcebus murinus	ENSMICG00000014191	1 retrocopy	retro_mmur_207,
Tupaia belangeri	ENSTBEG00000015437	1 retrocopy	retro_tbel_1280,