RetrogeneDB ID: retro_dnov_35

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_90639:156..810(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSDNOG00000010089
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000012571
• Aliases: None
• Description: None

Sequence

>retro_dnov_35
TGGGCAGTATCAAACGGAGAAATGCTCATAGCCCAGAACTGCTCTTTGGAATTTAAGCTACACAGACTGTATTTTATTAG
CCTGCTAATGGGTGGAACTACAAATCAGCGAGAAGCATTACAATATGCTAAACATTTTCAGCGATTTGTCCTAAATCATC
AAAAAGATATTCAAGTTTTGATGGGAAGCCTCGTGTGTCTGAGACAAGGGATGGAGAAATCACCTTATGTTCACCTGCTT
GATGCAAACCAGTGGGCTGACATCTGTGACGTCTTCACAGGGGACACCTGTGCCCTCCTGGGGCTCGCGGTGGAGTCCCC
TCTCAGTGTCAGTTTCCCAGCAGGTTGTGTGGCGCTGCCAGCTTTAATTAATATCAAAGTTGTGATTGAACAGAAGCAGG
GTCCTGGAGTTTGGAACCAGAAAGATGAATTACCCATTGAAGTGGACCTTGATGAAAAGTGCTGGTGTCACTCTCTATTT
GCCTGTCCCATTCTTGGTCAGCAAACAACAGATAACAGTCCACCCATGAGATTGGTCTGTGGTCATATTATATCAAGAGA
TGCCCTGAATAAAATGCTTAATGGGAGCAAATTAAAATGCCCATATTGTCCAATGGAACAAAGTCCAGGAGATGCCAAAC
AGATATTTTTCTGA

Alignment

ORF - retro_dnov_35 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.73 %
• Parental protein coverage: 60.87 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  WAVSNREMLIAQNSSLEFKLHRLYFISLLMGGTTNQREALQYAKNFQPFALNHQKDIQVLMGSLVYLRQG
          WAVSN.EMLIAQN.SLEFKLHRLYFISLLMGGTTNQREALQYAK.FQ.F.LNHQKDIQVLMGSLV.LRQG
Retrocopy WAVSNGEMLIAQNCSLEFKLHRLYFISLLMGGTTNQREALQYAKHFQRFVLNHQKDIQVLMGSLVCLRQG

Parental  IENSPYVHLLDANQWADICDIFTRDACALLGLSVESPLSVSFSAGCVALPALINIKAVIEQRQCTGVWNQ
          .E.SPYVHLLDANQWADICD.FT.D.CALLGL.VESPLSVSF.AGCVALPALINIK.VIEQ.Q..GVWNQ
Retrocopy MEKSPYVHLLDANQWADICDVFTGDTCALLGLAVESPLSVSFPAGCVALPALINIKVVIEQKQGPGVWNQ

Parental  KDELPIEVDLGKKCWYHSIFACPILRQQTTDSNPPMKLVCGHIISRDALNKMFNGS
          KDELPIEVDL..KCW.HS.FACPIL.QQTTD..PPM.LVCGHIISRDALNKM.NGS
Retrocopy KDELPIEVDLDEKCWCHSLFACPILGQQTTDNSPPMRLVCGHIISRDALNKMLNGS

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	26.45 RPM
SRP012922_cerebellum	0.82 RPM	54.99 RPM
SRP012922_heart	0.00 RPM	26.68 RPM
SRP012922_kidney	0.00 RPM	32.03 RPM
SRP012922_liver	0.15 RPM	26.01 RPM
SRP012922_lung	0.31 RPM	29.78 RPM
SRP012922_quadricep_muscle	1.21 RPM	77.02 RPM
SRP012922_spleen	0.34 RPM	42.24 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_35 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000012571	2 retrocopies	retro_dnov_1868, retro_dnov_35 ,
Tupaia belangeri	ENSTBEG00000016987	3 retrocopies	retro_tbel_2562, retro_tbel_4249, retro_tbel_551,