RetrogeneDB ID: retro_dnov_576

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_6361:137063..137409(+)
• Located in intron of: ENSDNOG00000014021

Retrocopy information

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

Parental gene information

• Parental gene symbol: BCL7B
• Ensembl ID: ENSDNOG00000003035
• Aliases: None
• Description: B-cell CLL/lymphoma 7B [Source:HGNC Symbol;Acc:1005]

Sequence

>retro_dnov_576
CTCCTTGAATTCCAGGATGATAACAGCAACCAGAGTTCTATTTCAGATGCCTACCAGCTCAAGGTGGACAGCAGCACCAA
CTCAAGCCCCGGCTCCCAGAAGAGCATGGTCCTGAACCCAGTGCACACCTTGGACTTCGGCACAGACAAATCCCAGCTAC
CCGCTCTGGGTCAGAAGATCCTCGAGGAGACCTCCCTGCCTGCCTCAGAAGTTGCTGGTGAACTTCCCATCCTTCACAAA
GGAAGAGCCAGTTCCACTAGAGACAGAGATTGCTGAGGAAGAGGAAGACTCCAGGGCCCCACCCCAGAAGCACGTCTATG
TGGACCAACATGCAGTGCCATAGACA

Alignment

ORF - retro_dnov_576 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.14 %
• Parental protein coverage: 67.25 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LLEFQDDNSNQSSVSDVYQLKVDSSTNSSPSPQQSESLSPAHTSDFRTDDSQPPTLGQEILEEPSLPASE
          LLEFQDDNSNQSS.SD.YQLKVDSSTNSSP..Q.S..L.P.HT.DF.TD.SQ.P.LGQ.ILEE.SLPASE
Retrocopy LLEFQDDNSNQSSISDAYQLKVDSSTNSSPGSQKSMVLNPVHTLDFGTDKSQLPALGQKILEETSLPASE

Parental  VADEPPTL-TKEEPVPLETQIAEEEDDSGAPPLKRFCVDQPTVPQT
          VA.E.P.L.TKEEPVPLET.IAEEE.DS.APP.K...VDQ..VP.T
Retrocopy VAGELPIL>TKEEPVPLETEIAEEEEDSRAPPQKHVYVDQHAVP*T

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	5.64 RPM
SRP012922_cerebellum	0.00 RPM	12.78 RPM
SRP012922_heart	0.23 RPM	4.87 RPM
SRP012922_kidney	0.00 RPM	7.94 RPM
SRP012922_liver	0.00 RPM	5.26 RPM
SRP012922_lung	0.31 RPM	8.40 RPM
SRP012922_quadricep_muscle	0.00 RPM	10.56 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_576 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000003035	1 retrocopy	retro_dnov_576 ,
Dasypus novemcinctus	ENSDNOG00000013429	1 retrocopy	retro_dnov_1682,
Ochotona princeps	ENSOPRG00000002414	2 retrocopies	retro_opri_763, retro_opri_80,