RetrogeneDB ID: retro_dnov_1023

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_13692:59816..60037(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SNAPIN
• Ensembl ID: ENSDNOG00000015216
• Aliases: None
• Description: SNAP-associated protein [Source:HGNC Symbol;Acc:17145]

Sequence

>retro_dnov_1023
ATGGCAGGGACTGTTTCTGCTGGTGTGTCTGCAGCAAGGACTCAAGTGGCAGTAGCTGTAGGTTGTGACCTCTTCTTGAG
AGGCTCCTAGAGTTCCTGAGACCTGCTGTACAACAGCTCAACTCTCATGTCCACACCATCAGAGAGAGCCAGGTAGAGCT
CTGGGAACATATTAACAACATAACTACAGAACTATGCCACATCAGTGAGGTCCAGAAGATG

Alignment

ORF - retro_dnov_1023 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.33 %
• Parental protein coverage: 54.41 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAGAGSAAVSGAGTPVTVPVGRDLFAEG-LLEFLRPAVQQLDSHVHAVRESQVELREHIDNLATELCRIN
          MAG..SA.VS.A.T.V.V.VG.DLF..G.LLEFLRPAVQQL.SHVH..RESQVEL.EHI.N..TELC.I.
Retrocopy MAGTVSAGVSAARTQVAVAVGCDLFLRG<LLEFLRPAVQQLNSHVHTIRESQVELWEHINNITTELCHIS

Parental  EDQKV
          E.QK.
Retrocopy EVQKM

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	10.89 RPM
SRP012922_cerebellum	0.00 RPM	20.48 RPM
SRP012922_heart	0.00 RPM	21.11 RPM
SRP012922_kidney	0.00 RPM	15.61 RPM
SRP012922_liver	0.00 RPM	8.05 RPM
SRP012922_lung	0.00 RPM	20.47 RPM
SRP012922_quadricep_muscle	0.00 RPM	24.23 RPM
SRP012922_spleen	0.00 RPM	24.95 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_1023 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.

---

Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003301	1 retrocopy	retro_chof_723,
Callithrix jacchus	ENSCJAG00000010373	1 retrocopy	retro_cjac_742,
Dasypus novemcinctus	ENSDNOG00000015216	1 retrocopy	retro_dnov_1023 ,
Mus musculus	ENSMUSG00000001018	1 retrocopy	retro_mmus_1257,
Sorex araneus	ENSSARG00000013451	1 retrocopy	retro_sara_19,