RetrogeneDB ID: retro_dnov_1955

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_38628:32197..32575(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSDNOG00000015187
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000023915
• Aliases: None
• Description: None

Sequence

>retro_dnov_1955
AAGGACAAGGAAAAGTCAGAAAATGCAAGAAACCCAAAAGAAGAAAGAAATCCAGACAGCAAAACAAGGGTTGCAGGAAA
GAGCGGAGCTGACGATGATGTACCCAGAAAAGCAAAAAGAAAAACTAATAAAGGACTGGCTGAGCACCTTAAGGAATACA
AGGAGGACATACACGATATGCATTTGAGCAATGAGGAGATGATAAGAGAATTTGATGAGATGGCTAGGGTGGAGGATGAG
GTGAGAAAAACCAAGCAGAAACTGGGGGGGTTTATGTGGATGCAAAAAAATTTACAGAATCCTTTCCACCCGAGGGGCCC
AAGGGAGCTCAGGGGTGGCTGTAGGGCCCCACAAAGGGGCTTTGAAGACATTCCTTAT

Alignment

ORF - retro_dnov_1955 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.56 %
• Parental protein coverage: 70.06 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KNKGKSEGDKGGKSKGKPES-SRDTRRHPAEDDVPRK--RKTSKGLTEYLKEYKA-IHEMPLSKEE-IRE
          K.K.KSE.....K....P.S..R......A.DDVPRK..RKT.KGL.E.LKEYK..IH.M.LS.EE.IRE
Retrocopy KDKEKSENARNPKEERNPDSKTRVAGKSGADDDVPRKAKRKTNKGLAEHLKEYKEDIHDMHLSNEEMIRE

Parental  FDDTARVGGKRKMSRQRIGAVLWMQKYLQNPYHP---SNLRGGCRAPQR-FEDLPY
          FD..ARV........Q..G...WMQK.LQNP.HP.....LRGGCRAPQR.FED.PY
Retrocopy FDEMARVEDEVRKTKQKLGGFMWMQKNLQNPFHPRGPRELRGGCRAPQRGFEDIPY

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	34.23 RPM	0.00 RPM
SRP012922_cerebellum	72.58 RPM	0.55 RPM
SRP012922_heart	26.45 RPM	0.23 RPM
SRP012922_kidney	57.50 RPM	1.10 RPM
SRP012922_liver	20.43 RPM	0.15 RPM
SRP012922_lung	51.47 RPM	1.37 RPM
SRP012922_quadricep_muscle	17.48 RPM	1.04 RPM
SRP012922_spleen	42.58 RPM	0.11 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_1955 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	ENSDNOG00000023915	1 retrocopy	retro_dnov_1955 ,