RetrogeneDB ID: retro_dnov_622

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_6913:234329..234875(+)
• Located in intron of: ENSDNOG00000007055

Retrocopy information

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

Parental gene information

• Parental gene symbol: DYNC2LI1
• Ensembl ID: ENSDNOG00000012538
• Aliases: None
• Description: dynein, cytoplasmic 2, light intermediate chain 1 [Source:HGNC Symbol;Acc:24595]

Sequence

>retro_dnov_622
GATCGTGAATTAATTGACCCATTTCCAATACCTCTGGTTATAATTGGAAGTAAATACGATATTTTTCAGGATTTTGACTC
TGAGAAGAGAAAGATAATATGCAAGACACTTCGATTTGTCGCACATTACTATGGAGCATCATTAATGTTTACCAGTAAAT
CAGAAGCTCTATTACTAAAAATACGTGGAATTATCAACCAGTTGGCATTTGGCATTGACAAAAGCAAATCAATATGTGTG
GGATCAGAACAAACCACTGTTTATCACAGCAGGATTGGATTCTTTAAGTCAAATAGGATCTCCTCCTGTTCCCGATAATG
ACATTGGAAAACTTCATGCACATTCACCAATGGAGCTGTGGAAAAAGGTGTATGAAAAGCTCTTTCCACCAAAGAGTATC
AACAAGTTGAAAGATGCCAGGGACCCTGCACGAGACCCTCAATATGCTGAAAGTGAAGTGGATGAAATGAGAATTCAAAA
GATCAGGAACTTGAACAGTACAAAAGAAGTTCTTCCAAGTCCTGGAAACAAATTGACTTTGAGTCT

Alignment

ORF - retro_dnov_622 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.28 %
• Parental protein coverage: 51.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DRELIDPFPIPLVIIGSKYDIFQDFDSEKRKIICKTLRFVAHYYEASLMFTSKSEAVLLKIRGIINQLAF
          DRELIDPFPIPLVIIGSKYDIFQDFDSEKRKIICKTLRFVAHYY.ASLMFTSKSEA.LLKIRGIINQLAF
Retrocopy DRELIDPFPIPLVIIGSKYDIFQDFDSEKRKIICKTLRFVAHYYGASLMFTSKSEALLLKIRGIINQLAF

Parental  GIDKSKSICV-DQNKPLFITAGLDSLSQIGSPPVPDNDIGKLHAHSPMELWKKVYERLFPPKSINKLKDA
          GIDKSKSICV.DQNKPLFITAGLDSLSQIGSPPVPDNDIGKLHAHSPMELWKKVYE.LFPPKSINKLKDA
Retrocopy GIDKSKSICV>DQNKPLFITAGLDSLSQIGSPPVPDNDIGKLHAHSPMELWKKVYEKLFPPKSINKLKDA

Parental  RDPARDPQYAESEVDEMRIQ-KDQELEQYKRSSSKSWKQIDFES
          RDPARDPQYAESEVDEMRIQ.KDQELEQYKRSSSKSWKQIDFES
Retrocopy RDPARDPQYAESEVDEMRIQ<KDQELEQYKRSSSKSWKQIDFES

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	0.58 RPM	1.94 RPM
SRP012922_cerebellum	1.37 RPM	1.79 RPM
SRP012922_heart	0.23 RPM	0.70 RPM
SRP012922_kidney	1.37 RPM	6.84 RPM
SRP012922_liver	1.86 RPM	3.41 RPM
SRP012922_lung	5.19 RPM	12.98 RPM
SRP012922_quadricep_muscle	0.00 RPM	0.69 RPM
SRP012922_spleen	2.75 RPM	4.92 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_622 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000012538	1 retrocopy	retro_dnov_622 ,
Mustela putorius furo	ENSMPUG00000011728	1 retrocopy	retro_mputfur_142,