RetrogeneDB ID: retro_dnov_2468

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_77755:5192..5796(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSDNOG00000024041
• Aliases: None
• Description: None

Sequence

>retro_dnov_2468
TCACCTGTGGACAGTTCTGAAGCTTGGAAAACAATAAATGAAGCTCATAATGAAACTAGACAAATATGGATGGTATCTGT
AGTCACTGAAAATGCAGTTTCAGGACATATACAGCTCACACTTCCTGTTTATTTTACACATGCTCCACCACTTGTGGTTA
CTGCAAATATTGTTGAAAAGACAGAAATGGGAAGACAATTAGACAGCCAGTCTTCTACCACTATGGGAGAGGCTGCTGGA
ATCTTGTTACAATGTATGTTGAAATTTCTGTTAAATTTTGGCCCTCTAAGTTTTTATGTTTTGTGCAATACAGTGCAGAT
TTTTGTCCTACTATGTCCATGATGCTAAATCCTCAGTGTGATGACACATATTGCAGAAAGCAGCAAGAGAAAAATACAAG
AAAGATGTTAGCAGCACTGTCCATATAGGAATTGTTCAAGAAGAAAAAATAATACCTAAAGACAATGAGTAGACTATTTA
GTTGGTTGGTATCTGATGTTTTAGAAAAGAAACTGAAAATTCTTCAGGTGCAGTTCCTGACTTACCTGAACGAGTCCAAC
TGGCAAATACAATTCAGAAAAAACAAAATGTTTCAACCAATGGT

Alignment

ORF - retro_dnov_2468 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.44 %
• Parental protein coverage: 50.62 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SCVDTFEARMTINTACNELGQTWMASGVSENAVSGHIQLIIPGESACFACAPPLVVAANIDEKTLKWEGV
          S.VD..EA..TIN.A.NE..Q.WM.S.V.ENAVSGHIQL..P.....F..APPLVV.ANI.EKT......
Retrocopy SPVDSSEAWKTINEAHNETRQIWMVSVVTENAVSGHIQLTLP---VYFTHAPPLVVTANIVEKTEMGRQL

Parental  CAASLPTTMGVVAGILVQNVLKFLLGFGTVSFYLGYNAMQ-DFFPTMSMKPNPQCEDKNCRKQQNE-YKK
          ...S..TTMG..AGIL.Q..LKFLL.FG..SFY...N..Q.DF.PTMSM..NPQC.D..CRKQQ.....K
Retrocopy DSQS-STTMGEAAGILLQCMLKFLLNFGPLSFYVLCNTVQ<DFCPTMSMMLNPQCDDTYCRKQQEKNTRK

Parental  KVAALPKQEVVQEEKEIIHEDNEWGIELVSEVSEEELK-NSLGPIPDLPEGITVAYTIPKTQEDSVPG
          ..AAL...E.....K............LVS.V.E..LK.NS.G..PDLPE....A.TI.K.Q..S..G
Retrocopy MLAALSI*ELFKKKK*YLKTMSRLFSWLVSDVLEKKLK<NSSGAVPDLPERVQLANTIQKKQNVSTNG

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	1.75 RPM
SRP012922_cerebellum	0.00 RPM	2.61 RPM
SRP012922_heart	0.00 RPM	0.23 RPM
SRP012922_kidney	0.00 RPM	0.82 RPM
SRP012922_liver	0.00 RPM	0.77 RPM
SRP012922_lung	0.00 RPM	1.53 RPM
SRP012922_quadricep_muscle	0.00 RPM	0.87 RPM
SRP012922_spleen	0.00 RPM	1.49 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_2468 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000006654	1 retrocopy	retro_dnov_882,
Dasypus novemcinctus	ENSDNOG00000024041	2 retrocopies	retro_dnov_1630, retro_dnov_2468 ,
Tarsius syrichta	ENSTSYG00000003103	1 retrocopy	retro_tsyr_1365,