RetrogeneDB ID: retro_dnov_2351

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_6688:44154..44928(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ERLEC1
• Ensembl ID: ENSDNOG00000025261
• Aliases: None
• Description: endoplasmic reticulum lectin 1 [Source:HGNC Symbol;Acc:25222]

Sequence

>retro_dnov_2351
GTAGCTGAAGTTACAATTTGTGAATATGAAGTTGTCATTTTGACACCACTCTTGGGCAATCATCCTAAATATAGGTTCAG
GGCATCTCCTGTAAGTGACATATTTTGCCAGTCATTGCCAGGATCAGCATTTAAACCCCTCACTCTGAGACAATTAAAGC
AACAGGAAGAAATACTAAGGGTGCCTTTTAGGAGAAATAAAGAGGATGAGTTGCAGTCAACTAAGGAAGAGAGATGTCCA
GCAATCCACCAACCCACTGATGTTGGCTCTCAACCAATGCTCACTGTTGGAACAACCCACATATCCAAATTGACAGGAGA
TCAACTCATAAAAGAGTTCCTTAGTGGTTCTTACTGCTTTCATGGGGGTGTTGTTTGGTGGAAATAGGAATTCTGCTATG
GCAAACATGTACATCAGTATCATGAGGGCAAGGAGAGTGGCAAAACCTCTGTGGTTGTGGGGACATGGAACCAAGAAGAG
TATGTTGAATGGGCTAAGAATAATACTGCTATAGCATATCATCTTCAAGATGATGGCACCCAGATAGTCAGGATGGTGTC
ACGTTTTTATGGGAATGGAGATATTTGTGATAAAACTGACAAACCAAGACAGGTGACTGTAAAACTAAAGTGTAAAGAAT
CAGATTATTCTCTTGCTGTTGCTGTATATATGCTAGAACCTCACTCATGTCAGTATATTCCTGGGGTTGAATCTCCAGTG
ATCTGTATAATCTTAGATACAGCAGATGAAAATGGACTCCTTTCTCTCCCCAAC

Alignment

ORF - retro_dnov_2351 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.35 %
• Parental protein coverage: 69.97 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VAEVTTCEYEVVILTPLLCSHPKYRFRASPVNDIFCQSLPGSPFKPLTLRQLEQQEEILRVPFRRNKEDE
          VAEVT.CEYEVVILTPLL..HPKYRFRASPV.DIFCQSLPGS.FKPLTLRQL.QQEEILRVPFRRNKEDE
Retrocopy VAEVTICEYEVVILTPLLGNHPKYRFRASPVSDIFCQSLPGSAFKPLTLRQLKQQEEILRVPFRRNKEDE

Parental  LQSTKEERFPAIN--TDVGS-PMLTVGTTHISKLTGDQLIKEFLSGSYCFHGGVVWWK-EFCYGKHVHQY
          LQSTKEER.PAI...TDVGS.PMLTVGTTHISKLTGDQLIKEFLSGSYCFHGGVVWWK.EFCYGKHVHQY
Retrocopy LQSTKEERCPAIHQPTDVGSQPMLTVGTTHISKLTGDQLIKEFLSGSYCFHGGVVWWK*EFCYGKHVHQY

Parental  HEGKESGKTSVVVGTWNQEEYVEWAKNNTAIAYHLQDDGTQIVRMVSRFYGNGDICDKTDKPRQVTVKLK
          HEGKESGKTSVVVGTWNQEEYVEWAKNNTAIAYHLQDDGTQIVRMVSRFYGNGDICDKTDKPRQVTVKLK
Retrocopy HEGKESGKTSVVVGTWNQEEYVEWAKNNTAIAYHLQDDGTQIVRMVSRFYGNGDICDKTDKPRQVTVKLK

Parental  CKESDYSLAVAVYMLEPHSCQYIPGVESPVICIILDTADENGLLSLPN
          CKESDYSLAVAVYMLEPHSCQYIPGVESPVICIILDTADENGLLSLPN
Retrocopy CKESDYSLAVAVYMLEPHSCQYIPGVESPVICIILDTADENGLLSLPN

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	4.86 RPM	21.00 RPM
SRP012922_cerebellum	3.44 RPM	10.86 RPM
SRP012922_heart	1.16 RPM	7.89 RPM
SRP012922_kidney	4.93 RPM	17.80 RPM
SRP012922_liver	1.08 RPM	13.00 RPM
SRP012922_lung	5.19 RPM	20.77 RPM
SRP012922_quadricep_muscle	1.73 RPM	9.87 RPM
SRP012922_spleen	5.15 RPM	21.86 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_2351 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	ENSDNOG00000025261	1 retrocopy	retro_dnov_2351 ,