RetrogeneDB ID: retro_dnov_2210

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_55762:3005..3491(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSDNOG00000000030
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000025841
• Aliases: None
• Description: None

Sequence

>retro_dnov_2210
GGCAGCCAGAATGATGTCAGTGGCTTTGTGGACCCAGTACTGGCCCTCCAGGATGCCCAGGATCTGCATACAACAGGGAA
GAAGATCCATAGAACTGACGAGATGTAGTTCATCACCATGCTGACCATGCAGAGCACCCCCCTGATAAGGGTGTTTGAGG
AATATGAGAGAATTACCAACAAGAGCATGGAGGACAATATCCAGAGTGAGACCCAAGGTTTACTGTAGGAGGCCATGCTA
ACTGCGGTGGTGGTGAAATGCATACAGAACCTGCACAGCTATTTAGTGGAGTGGCTCTACTATGCCATAAAGGGAGTAGA
GATGAGGGATGGCACCCTGATAAGAAACATCATTTCAAGGAGCGAGATTGACTTAAATCTGATCAAGTGTCAGTTCCAGA
AGACATAAGGCCAGACACTCAGGAATATGATCACGGAGGACACCAGTGGTGACCACAAGAATGCCCTGCTGAACCTGGTA
GGCAGT

Alignment

ORF - retro_dnov_2210 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.96 %
• Parental protein coverage: 55.71 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GSRDDVSGFVDPALALQDAQDLFAAGEKIHGTDEMKFITILTTRSATHLMRVFEEYEKIANKSIEDSIKS
          GS..DVSGFVDP.LALQDAQDL...G.KIH.TDEM.FIT.LT..S.T.L.RVFEEYE.I.NKS.ED.I.S
Retrocopy GSQNDVSGFVDPVLALQDAQDLHTTGKKIHRTDEM*FITMLTMQS-TPLIRVFEEYERITNKSMEDNIQS

Parental  ETHGSLEEVMLT--VVKCTQNLHSYFAERLYYAMKXXXXXXXXXXXXXXXXXXXXLNLIKGQFKKMYGQS
          ET.G.L.E.MLT..VVKC.QNLHSY..E.LYYA.K....................LNLIK.QF.K..GQ.
Retrocopy ETQGLL*EAMLTAVVVKCIQNLHSYLVEWLYYAIKGVEMRDGTLIRNIISRSEIDLNLIKCQFQKT*GQT

Parental  LSSKIAEDTSGDYRNALLNLVGS
          L...I.EDTSGD..NALLNLVGS
Retrocopy LRNMITEDTSGDHKNALLNLVGS

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	0.19 RPM
SRP012922_cerebellum	0.00 RPM	0.14 RPM
SRP012922_heart	0.00 RPM	0.00 RPM
SRP012922_kidney	0.00 RPM	1.92 RPM
SRP012922_liver	0.00 RPM	0.31 RPM
SRP012922_lung	0.00 RPM	0.46 RPM
SRP012922_quadricep_muscle	0.00 RPM	0.00 RPM
SRP012922_spleen	0.00 RPM	3.66 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_2210 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000025841	1 retrocopy	retro_dnov_2210 ,