RetrogeneDB ID: retro_dnov_33

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_2778:109755..110514(+)
• Located in intron of: ENSDNOG00000017467

Retrocopy information

• Ensembl ID: ENSDNOG00000000487
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000007018
• Aliases: None
• Description: None

Sequence

>retro_dnov_33
ATAAGGTCTTTCTCCAGTGTGGACTCTCCGATGTTGAATGAGAACAGAGCTTTGGCTAAAAGACTTTCCACATTCACTAC
ACTTATAAGGCCTTGCTCCAGTGTGAACTCTCCAATGTTTTCTGAGGCTGTAGCTTTGGCTAAAGGATTTACCACATTCA
CTGCACTCATAAGGCATTTCTCCAGTGTGAATTCTCCTGTGCACAATAAGGTGGGAGCTCTTGCTGAAGAATTTGCCGCA
TTCGCTGCACTCATAAGGCCGTTCCCCAGTATGAACTCTACGGTGTTGAACAAGGGTGGAGCTTTGGCTAAAGGATTTTC
CACATTCACTGCACTCATAAGGCCTTGCTCCAGTGTGAACTCTCCAATGTTTTCTGAGGCTGTAGCTTTGGTTAAAGGAT
TTCCCACATTCACTGCACTCATAAGGCATTTCTCCAGTGTGGATTCTCCTGTGCACAACCAGGTGGGAGCGTTTGCTAAA
GAATTTCCCACATTCACTGCACTCATAAGGTCTTTCCCCAGCGTGAACCTTGCTGCACTCATAAGGCCTCTCTCCAGTGT
GAACTCTCTGATGTTGTATGAGGCCAGAGATTTGGCTAAAGAATTTCCCACAGTCACCATGCTCATACAGTCTTTCTTCA
AAATGAATTTGCTGGTGCTGAATAAGTTGGTACTTGCAGCTAAAGGCTTTCTCACATTTGCTACACTCAAAAAGTCCTTC
TCCAGTACAGACCCTCTGGTGGTGAACGAGTACGTGTTT

Alignment

ORF - retro_dnov_33 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.96 %
• Parental protein coverage: 70.49 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RPFASVNSPMLNEAGFAVKGFPTFSALIRLFSSVNSLVLNEASLLAKGFPTFTTLIRLCASVNSPVLSEF
          R.F.SV.SPMLNE.....K...TF..LIR..SSVNS....EA..LAKGF.TFT.LIR...SVNSPV....
Retrocopy RSFSSVDSPMLNENRALAKRLSTFTTLIRPCSSVNSPMFSEAVALAKGFTTFTALIRHFSSVNSPVHNKV

Parental  RFADKAFSTFSALKRPLSSVNSPVLNE-GRIAKGFPTFSTLKRLLTSVNSPMLNEIGFAIKGFPTFSALI
          ......F..F.AL.RP..S.NS.VLN..G..AKGF.TF..L.R...SVNSPM..E.....KGFPTF.ALI
Retrocopy GALAEEFAAFAALIRPFPSMNSTVLNKGGALAKGFSTFTALIRPCSSVNSPMFSEAVALVKGFPTFTALI

Parental  RLFSSVNCPVLNELQCVAKGFSTFTAIIRPFSSVNSPVL----SEVDLLGFLTFAALIRHFSSVNSLV
          R.FSSV..PV.N.....AK.F.TFTA.IR.F.SVN...L....S.V..L.......L...F..V..L.
Retrocopy RHFSSVDSPVHNQVGAFAKEFPTFTALIRSFPSVNLAALIRPLSSVNSLMLYEARDLAKEFPTVTMLI

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	1.17 RPM	0.00 RPM
SRP012922_cerebellum	6.05 RPM	0.00 RPM
SRP012922_heart	1.39 RPM	0.00 RPM
SRP012922_kidney	3.01 RPM	0.00 RPM
SRP012922_liver	0.31 RPM	0.00 RPM
SRP012922_lung	4.43 RPM	0.00 RPM
SRP012922_quadricep_muscle	1.04 RPM	0.00 RPM
SRP012922_spleen	3.89 RPM	0.00 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_33 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000007018	1 retrocopy	retro_dnov_33 ,
Monodelphis domestica	ENSMODG00000023141	4 retrocopies	retro_mdom_1425, retro_mdom_1832, retro_mdom_1972, retro_mdom_797,
Monodelphis domestica	ENSMODG00000023689	1 retrocopy	retro_mdom_1214,