RetrogeneDB ID: retro_dnov_575

Retrocopy location

• Organism: Armadillo (Dasypus novemcinctus)
• Coordinates: GeneScaffold_636:412786..414025(-)
• Located in intron of: ENSDNOG00000009262

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_575
AAGCAGCAAAAGCCAACGCTATCAGGCCAGCGTTTTAAAACTAGGAAAAGAGATGAAAAAGAGAGGTTTGACCCTACTCA
GTTTCAGGACTGTATTATTCAAGGCTTAACTGAAACTGGTACTGATTTGGAAGCAGTAGCAAAGTTTCTTGATGCTTCTG
GAGCAAAACTTGATTACCGCCGATATGCAGAAACACTCTTTGACATTTTGGTGGCCGGTGGAATGCTGGCCCCAGGTGGT
ACATTGGCAGATGACATGATGCGTACAGATGTCTGTGTGTTTGCAGCACAAGAAGACTTAGAGACCATGCAAGCATTTGC
TCAGGTTTTTAACAAGTTAATCAGGTGCTACAAATACCTGGAGAAAGGTTTTGAAGATGAAGTTAAAAAGCTGCTGCTGT
TCTTAAAGGGTTTTTCAGAGTCAGAAAGGAAAAAGCTGGCTATGTTGACTGGTGTATTTCTGGCTAATGGGACACTTAAT
GCATCCATTCTTAATAGCCTTTATAATGAGAATTTGGTTAAAGAAGGAGTTTCTGCAGCTTTTGCTGTAAAGCTCTTTAA
ATCATGGATAAATGAAAAAGATATCAATGCAGTAGCTGCAAGTCTTCGGAAAGTTAGCATGGATAACAGACTGATGGAAC
TTTTTCCTGCAAATAAGCAAAGTGTCGAACACTTCACAAAGTATTTTACTGAGGCAGGCTTGAAAGAGCTTTCTCAGTAT
GTTCGCAATCAGCAAACCATAGGAGCTCGTAAGGACCTCCAGAAAGAACTTCAAGAACAGATGTCACGTGGTGATCCGTT
TAAGGATATCATTTTATATGTCAAGGAGGAGATGAAAAAAAACAACATCCCAGAACCAGTTGTCATTGGAATAGTCTGGT
CAAGTGTAATGAGCACTGTGGAATGGAACAAAAAAGAGGAGCTTATAGCAGAGCAAGCCATCAAGCACTTGAAGCAATAC
AGCCCTCTACTTGCTGCCTTTACTACTCAAGGTCAGTCTGAGCTGACTCTGCTACTGAAGATTCAGGAGTATTGTTATGA
CAACATTCATTTCATGAAAGCCTTCCAGAAAATAGTGGTGCTTTTTTATAAAGCTGAAGTCCTGAGTGAAGAGCCCATTC
TGAAGTGGTATAAAGATGCACATGTTGCAAAGGGGGAAAGTATCTTCCCTGAGCAAATGAAAAAGTTTGTAGAGTGGCTC
AAAAGTGCTGAAGAAGAATCTGAGTCTGAAGCTGAAGAG

Alignment

ORF - retro_dnov_575 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.9 %
• Parental protein coverage: 99.28 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KHQKPVLTGQRFKTRKRDEKEKFEPTVFRDTLVQGLNEAGDDLEAVAKFLDSTGSRLDYRRYADTLFDIL
          K.QKP.L.GQRFKTRKRDEKE.F.PT.F.D...QGL.E.G.DLEAVAKFLD..G..LDYRRYA.TLFDIL
Retrocopy KQQKPTLSGQRFKTRKRDEKERFDPTQFQDCIIQGLTETGTDLEAVAKFLDASGAKLDYRRYAETLFDIL

Parental  VAGSMLAPGGTRIDDGDKTKMTNHCVFSANEDHETIRNYAQVFNKLIRRYKYLEKAFEDEMKKLLLFLKA
          VAG.MLAPGGT..DD...T.....CVF.A.ED.ET....AQVFNKLIR.YKYLEK.FEDE.KKLLLFLK.
Retrocopy VAGGMLAPGGTLADDMMRTDV---CVFAAQEDLETMQAFAQVFNKLIRCYKYLEKGFEDEVKKLLLFLKG

Parental  FSETEQTKLAMLSGILLGNGTLPATILTSLFTDNLVKEGIAASFAVKLFKAWMAEKDANSVTSSLRKANI
          FSE.E..KLAML.G..L.NGTL.A.IL.SL...NLVKEG..A.FAVKLFK.W..EKD.N.V..SLRK...
Retrocopy FSESERKKLAMLTGVFLANGTLNASILNSLYNENLVKEGVSAAFAVKLFKSWINEKDINAVAASLRKVSM

Parental  DKRLLELFPVNRQSVDHFAKYFTDAGLKELSDFLRVQQSLGTRKELQKELQERLSQECPIKEMVLYVKEE
          D.RL.ELFP.N.QSV.HF.KYFT.AGLKELS...R.QQ..G.RK.LQKELQE..S...P.K...LYVKEE
Retrocopy DNRLMELFPANKQSVEHFTKYFTEAGLKELSQYVRNQQTIGARKDLQKELQEQMSRGDPFKDIILYVKEE

Parental  -KRNDLPETAVIGLLWTCIMNAVXXXXXXXXXXXXXXXXXXQYAPLLAVFSSQGQSELILLQKVQEYCYD
          ......PE..VIG..W...M..V..................QY.PLLA.F..QGQSEL.LL.K.QEYCYD
Retrocopy MXXXNIPEPVVIGIVWSSVMSTVEWNKKEELIAEQAIKHLKQYSPLLAAFTTQGQSELTLLLKIQEYCYD

Parental  NIHFMKAFQKIVVLFYKADVLSEEAILKWYKEAHVAKGKSVFREQMKKFVXXXXXXXXXSESEGEE
          NIHFMKAFQKIVVLFYKA.VLSEE.ILKWYK.AHVAKG.S.F.EQMKKFV.........SESE.EE
Retrocopy NIHFMKAFQKIVVLFYKAEVLSEEPILKWYKDAHVAKGESIFPEQMKKFVEWLKSAEEESESEAEE

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	30.34 RPM	61.45 RPM
SRP012922_cerebellum	8.39 RPM	11.41 RPM
SRP012922_heart	3.94 RPM	224.84 RPM
SRP012922_kidney	16.98 RPM	10.95 RPM
SRP012922_liver	25.08 RPM	9.13 RPM
SRP012922_lung	15.88 RPM	38.94 RPM
SRP012922_quadricep_muscle	5.71 RPM	261.36 RPM
SRP012922_spleen	32.16 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_575 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,