RetrogeneDB ID: retro_dnov_1734

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_2797:16859..17277(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: METTL21D
• Ensembl ID: ENSDNOG00000013492
• Aliases: None
• Description: methyltransferase like 21D [Source:HGNC Symbol;Acc:20352]

Sequence

>retro_dnov_1734
AGAAGTGAGACTGCAGTTCTGAGAATACAGCAATATGGCTCTGGTGGCATGGGCTGTGTGTATGTTTGGGAAGCTGCAAT
TGTCCTTTCTAAATACTTGGCAACACCAAGTTTTTCCAGTGATAGGGCCCACTTGCTGAGCCTGCGGTCAGTGCTGGAGC
TGGGCTGGCCTCTGGGGCCATGGGGTTCATGGTCACTATCTTGAGACAAATATTGTAGTCACCAGTCTTGAGGAATGACA
AGACTTGCTGAAGATGAATATTAATATGAACAAGCATCTTGTCCCTGGTTCTGTTCAATCCAAGGTGCTGAAATGGGAAG
AAAAAGACTTTCCACCTCCACCAAACTACATAGTGATGGCCAAGTGCATATACTATGAGAGCTCCTTCAACTGGATTTTG
ACTTTGAAAAAATTCCTT

Alignment

ORF - retro_dnov_1734 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.72 %
• Parental protein coverage: 61.57 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KRDGTVLRLQQYGSGGVGCV-VWDAAIVLSKYLETPGFAGDGTHSLNRRSVLELG-SGTGAVGLMAATLG
          .....VLR.QQYGSGG.GCV.VW.AAIVLSKYL.TP.F..D..H.L..RSVLELG....GA.G.M...L.
Retrocopy RSETAVLRIQQYGSGGMGCVYVWEAAIVLSKYLATPSFSSDRAHLLSLRSVLELG<LASGAMGFMVTILR

Parental  -ANVVVTDLEELQDLLKMNINMNKHLVTGSVQAKVLKWGEEIEGFPSPPDYILMADXXXXXXSLEPLLKT
          ..N.VVT.LEE.QDLLKMNINMNKHLV.GSVQ.KVLKW.E....FP.PP.YI.MA.......S....L..
Retrocopy <TNIVVTSLEE*QDLLKMNINMNKHLVPGSVQSKVLKWEE--KDFPPPPNYIVMAKCIYYESSFNWILTL

Parental  LKDL
          .K.L
Retrocopy KKFL

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	2.72 RPM
SRP012922_cerebellum	0.00 RPM	9.76 RPM
SRP012922_heart	0.00 RPM	0.93 RPM
SRP012922_kidney	0.00 RPM	1.10 RPM
SRP012922_liver	0.00 RPM	3.25 RPM
SRP012922_lung	0.00 RPM	4.58 RPM
SRP012922_quadricep_muscle	0.00 RPM	1.04 RPM
SRP012922_spleen	0.00 RPM	4.58 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_1734 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000013492	1 retrocopy	retro_dnov_1734 ,
Homo sapiens	ENSG00000100483	1 retrocopy	retro_hsap_365,
Mustela putorius furo	ENSMPUG00000004994	1 retrocopy	retro_mputfur_886,
Pongo abelii	ENSPPYG00000005798	1 retrocopy	retro_pabe_337,
Pan troglodytes	ENSPTRG00000006327	1 retrocopy	retro_ptro_286,