RetrogeneDB ID: retro_dnov_2167

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_5210:46029..46470(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000025905
• Aliases: None
• Description: None

Sequence

>retro_dnov_2167
AGTCAAAAGAACATCCTAAAAGCATGGTTTGATAAAAACCCTTACCCTCAGTGGGAAACCAGAAAACAAATCGCCAAAGA
AATTGGCGTTCCAGAGCTTAAAATTGAGTGTTGGTTTAGAAACTTCAGAATGAAACAGAGAAGACTGGTGTCTGGATGCT
CCTTAGGAAAGCCTTGGCCCTGCCCTCAAGAATGCCTACCAGAAGAAACCAGAAGACCCCAGACATCCACCATGAGATCT
CAAACAAGTACGCCAGGTCAAGCCTTTGAGAAGAACCAAAGCCCTGACAGTACTACCAGGGGAGAACTGCCTAAACAAAC
AGGCTTTCCAGAACCAAGAGTTCAAAAATGGTTTTTGAACCAAAGCGATCAGCACCCAGAGCAAAGCAAAAGGGAATCCA
TAAATTCCTTGGGAGATAGCCCAAGTGGGGGCCCAATTCTG

Alignment

ORF - retro_dnov_2167 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.71 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SQKDILKAWFDKNPYPQWETRKQIAKEIGVPELKIERWFRNFRNVKTLLFLLCSL---LECPPE----ES
          SQK.ILKAWFDKNPYPQWETRKQIAKEIGVPELKIE.WFRNFR.....L...CSL.....CP.E....E.
Retrocopy SQKNILKAWFDKNPYPQWETRKQIAKEIGVPELKIECWFRNFRMKQRRLVSGCSLGKPWPCPQECLPEET

Parental  RRPQTSTMRSQTSTPGQAFEKNQSPDSTTRGELPKQTGFPEPRVQKWFLNQSDQHPEQSKRESINSLGDS
          RRPQTSTMRSQTSTPGQAFEKNQSPDSTTRGELPKQTGFPEPRVQKWFLNQSDQHPEQSKRESINSLGDS
Retrocopy RRPQTSTMRSQTSTPGQAFEKNQSPDSTTRGELPKQTGFPEPRVQKWFLNQSDQHPEQSKRESINSLGDS

Parental  PSGGPIL
          PSGGPIL
Retrocopy PSGGPIL

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	0.00 RPM
SRP012922_cerebellum	0.00 RPM	0.00 RPM
SRP012922_heart	0.00 RPM	0.00 RPM
SRP012922_kidney	0.00 RPM	0.00 RPM
SRP012922_liver	0.00 RPM	0.00 RPM
SRP012922_lung	0.00 RPM	0.00 RPM
SRP012922_quadricep_muscle	0.00 RPM	0.00 RPM
SRP012922_spleen	0.00 RPM	0.00 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_2167 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	ENSDNOG00000025505	1 retrocopy	retro_dnov_701,
Dasypus novemcinctus	ENSDNOG00000025905	1 retrocopy	retro_dnov_2167 ,