RetrogeneDB ID: retro_dnov_2422

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: scaffold_7363:103135..104066(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BZW2
• Ensembl ID: ENSDNOG00000001663
• Aliases: None
• Description: basic leucine zipper and W2 domains 2 [Source:HGNC Symbol;Acc:18808]

Sequence

>retro_dnov_2422
CTCAAATACTGCTGATATGCAGAAATACTCTTGACATTCTGGTGGCCGGTGGAATGCCGGCCCCAGGTGGTACACTGGCA
GATGGCACAATGTGCACAGATGTCCATGTGTTTGCAGCACAAGAAGATCTAGATAGAGACCATGCAAGCATTTGCTCAGT
TTTTTTTTTCAACAAGTTACTCAAGCACTTACAAACACCTGGAGAAAGAGTTTGAAGATGAAGTTAAAAAGCTGCTGTTG
TTCTTAAAGGGTTTTTCAGAGTCAGAATGGAACAAGCTGGCTATGTTTACTGGTGTTCTTCTGGCTAATGGGACACGTAA
TGCATCCATTCTTAATAGCCTTTAAAATGAGAATTTGGGTAAAGAAGGGGTTTCAGCAGTTTTGCTGTAAAATTCTTTAA
ATCATGGATAAATGAAGAAGATATCAATATACTCACTGCAAGTCTTTGGAAAGTCAGCATGGACAACAGACCCGATGGAA
CTTTTTTCCTGCCAATGAGCAAAGCATCGAACACTTCATAAAGTATTTTACTGAGGCAGGCTTGAAAGAGCTTTCTGAGT
GTGTTTGGAATCAGCAAACCATAAGAGCTTGTAAGGAGCTCCACAAAGAACTTCAAGAACAAATGTCATGTGATGATCCA
TTTAAGGATAACATTTTCTATGTCAAGAAGGGGATGAAACAAACCAACATCCCAGAACCAGTTGTTATTGAAATAGTCTT
GTCAAGTGTAATGAGCACTGTGGAATGGAACAAAAAAGAGGAGCTTGTCGCAGAGCAAGCCATGAAGCGCTTGAAGCCAT
ACAGCCCTCTACTCGCTGCCTCTACTCCTCAAGTTCAGTCTGAGCTGATTCTGTGACTGAAGATTCAGAAGTATTGTTAG
GACAACATTCATTTCATGGAAGCCTTCCAGAAAAGAGTGGTACTTTATTTT

Alignment

ORF - retro_dnov_2422 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.47 %
• Parental protein coverage: 73.92 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  LDYRRYADTLF-DILVAGSMLAPGGTRIDDGDKTKMTNHCVFSANE----DHETIRNYAQVFNKLIRR-Y
          L.Y..YA..L..DILVAG.M.APGGT.....D.T..T...VF.A.E....DH..I.......NKL....Y
Retrocopy LKYC*YAEILL<DILVAGGMPAPGGTL---ADGTMCTDVHVFAAQEDLDRDHASICSXXXX-NKLLKH>Y

Parental  KYLEKAFEDEMKKLLLFLKAFSETEQTKLAMLSGILLGNGTLPATILTSLFTDNLVKEGIAA-SFAVKLF
          K.LEK.FEDE.KKLLLFLK.FSE.E..KLAM..G.LL.NGT..A.IL.SL...NL.KEG..A.SFAVK.F
Retrocopy KHLEKEFEDEVKKLLLFLKGFSESEWNKLAMFTGVLLANGTRNASILNSL*NENLGKEGVSA<SFAVKFF

Parental  KAWMAEKDANSVTSSLRKANIDKR-LLELF-PVNRQSVDHFAKYFTDAGLKELSDFLRVQQSLGTRKELQ
          K.W..E.D.N..T.SL.K...D.R...ELF.P.N.QS..HF.KYFT.AGLKELS.....QQ.....KEL.
Retrocopy KSWINEEDINILTASLWKVSMDNR>PMELF>PANEQSIEHFIKYFTEAGLKELSECVWNQQTIRACKELH

Parental  KELQERLSQECPIKEMVLYVKE-EKRNDLPETAVIGLLWTCIMNAVXXXXXXXXXXXXXXXXXXQYAPLL
          KELQE..S...P.K....YVK...K....PE..VI.......M..V...................Y.PLL
Retrocopy KELQEQMSCDDPFKDNIFYVKKGMKQTNIPEPVVIEIVLSSVMSTVEWNKKEELVAEQAMKRLKPYSPLL

Parental  AVFSSQGQSELILLQKVQEYCYDNIHFMKAFQKIVVLFY
          A....Q.QSELIL..K.Q.YC.DNIHFM.AFQK.VVL..
Retrocopy AASTPQVQSELIL*LKIQKYC*DNIHFMEAFQKRVVLYF

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	61.45 RPM
SRP012922_cerebellum	0.00 RPM	11.41 RPM
SRP012922_heart	0.00 RPM	224.84 RPM
SRP012922_kidney	0.00 RPM	10.95 RPM
SRP012922_liver	0.00 RPM	9.13 RPM
SRP012922_lung	0.00 RPM	38.94 RPM
SRP012922_quadricep_muscle	0.00 RPM	261.36 RPM
SRP012922_spleen	0.00 RPM	41.55 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_2422 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 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000001663	4 retrocopies	retro_dnov_2177, retro_dnov_2422 , retro_dnov_2649, retro_dnov_575,
Equus caballus	ENSECAG00000022038	1 retrocopy	retro_ecab_1121,
Macaca mulatta	ENSMMUG00000017045	1 retrocopy	retro_mmul_1457,
Ochotona princeps	ENSOPRG00000005256	2 retrocopies	retro_opri_665, retro_opri_9,
Pongo abelii	ENSPPYG00000017763	1 retrocopy	retro_pabe_2385,
Pteropus vampyrus	ENSPVAG00000014571	1 retrocopy	retro_pvam_481,
Ictidomys tridecemlineatus	ENSSTOG00000002506	1 retrocopy	retro_itri_1286,
Tarsius syrichta	ENSTSYG00000009806	1 retrocopy	retro_tsyr_1923,
Tursiops truncatus	ENSTTRG00000009867	1 retrocopy	retro_ttru_162,