RetrogeneDB ID: retro_pvam_481

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: GeneScaffold_3405:118881..120137(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BZW2
• Ensembl ID: ENSPVAG00000014571
• Aliases: None
• Description: basic leucine zipper and W2 domains 2 [Source:HGNC Symbol;Acc:18808]

Sequence

>retro_pvam_481
ATGAATAAGCATCAGACGCCAGTGCTAACAAGCCAGCGGTTCAAATCTCAGAAAAGGGATGAAAAAGAGAAATTCAAACC
TACAGTCTTCAGGGATATACTTGTCCCGGGGCTTAATGAAGCTGGTGGTGACCTTAAAGCTGTAGTCAAGTTTCTGGACT
CTACAAGATCAAGATTAGGTTATCATCGCAATGCAGACACACTCTTCAATATCCTAGTGGCTGGCAGTATGCTTGTCCCT
GGAGGGACACACGTAGATGATGATGACAAGAACAAGATGACCAACCACTGTGTATTTTCAGCAAATGAAGATCATGAAAC
CATCCGAAACTATGCTCAGGTCTTCAATAAACTCATCAGGAGATATAAATATTTGGAAAAGGCATTCGAGGATGAAATGA
AAAAGCTTCTCCTCTTCCTTAAAGCCTTTTCCAAAATAGCAGACAAAGCTGGCGGTGCTGTCAGGCATCCTGCTGGGCAA
CGACACCTTTCCTGCCGCCATCTTCACCAGTCTCTTCACTGACAGCTCAGTCAAAGAAGGCACTGCAGCCTCATTTGCTG
TCGAGCTTTTTAAAGCAAGGATAGAAGAAAAAGATGCCAACTCTGTTACCTCTTCTTTGAGAAAAGCCAACTTAGATAAG
AGGCTGCTTGAACTCTTTCCAGTTAACAGACAGACTGTGGATCATTTTGCTAAATACTTCACGGACACAAGACTAAAGGA
GCTTTCTGATTTCCTGCGAGCCCAGCAGCCCCTGGGCACCAGGAAGGAACTGCAGAAGGAGCTCCAGGAGCATCTTTGTC
AGGAAGGCCCGATCAAGGAGGTGGTGCCCTATGTTAAAAGAAGAAATGAAGAGGAATGACCTTCCGGAAACAGCAATGAT
TGGACTTCTGTGGACATGTATCATGAATGCTGTTGAATGGAACAAGAAGGAGGAACTTGTTGCAGAGCAGGCCCTTAAGC
ACCTGAAGCAATATGCTCCCCTGCTGGCTGTGTTCAGCTCCCAAGGCCAGTCAGAGATGATCTTCCTCCAGAAGGTTCAG
GAATATTGTTACGACAACATCCATTTCATGAAAGCCTTTCAGAAGATTGTGGTTCTCTTTTATAAAGCCAATGTGCTAAG
TGAAGAAGCAATTTTGAAATGGTACAAAGAAGCACACGTGGCCAAAGGCAAAAGTGTTTTTCTTGACCAGATGAAGAAAT
TTGTTGAATGGTTACAAAATGCAGAGGAAGAATCTGAATCAGAAGGTGAGGAAAAT

Alignment

ORF - retro_pvam_481 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.12 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MNKHQKPVLTGQRFKTRKRDEKEKFEPTVFRDTLVQGLNEAGDDLEAVAKFLDSTGSRLDYRRYADTLFD
          MNKHQ.PVLT.QRFK..KRDEKEKF.PTVFRD.LV.GLNEAG.DL.AV.KFLDST.SRL.Y.R.ADTLF.
Retrocopy MNKHQTPVLTSQRFKSQKRDEKEKFKPTVFRDILVPGLNEAGGDLKAVVKFLDSTRSRLGYHRNADTLFN

Parental  ILVAGSMLAPGGTRIDDGDKTKMTNHCVFSANEDHETIRNYAQVFNKLIRRYKYLEKAFEDEMKKLLLF-
          ILVAGSML.PGGT..DD.DK.KMTNHCVFSANEDHETIRNYAQVFNKLIRRYKYLEKAFEDEMKKLLLF.
Retrocopy ILVAGSMLVPGGTHVDDDDKNKMTNHCVFSANEDHETIRNYAQVFNKLIRRYKYLEKAFEDEMKKLLLF>

Parental  LKAFSETEQTKLAMLSGILLGNGTLPAAILTSLFTDSLVKEGIAASFAVKLFKAWMAEKDANSVTSSLRK
          LK.F....QTKLA.LSGILLGN.T.PAAI.TSLFTDS.VKEG.AASFAV.LFKA...EKDANSVTSSLRK
Retrocopy LKPFPK*-QTKLAVLSGILLGNDTFPAAIFTSLFTDSSVKEGTAASFAVELFKARIEEKDANSVTSSLRK

Parental  ANLDKRLLELFPVNRQSVDHFAKYFTDAGLKELSDFLRVQQSLGTRKELQKELQERLSQECPIKEVVLYV
          ANLDKRLLELFPVNRQ.VDHFAKYFTD..LKELSDFLR.QQ.LGTRKELQKELQE.L.QE.PIKEVV.YV
Retrocopy ANLDKRLLELFPVNRQTVDHFAKYFTDTRLKELSDFLRAQQPLGTRKELQKELQEHLCQEGPIKEVVPYV

Parental  K-EEMKRNDLPETAVIGLLWTCIMNAVEWNKKEELVAEQALKHLKQYAPLLAVFSSQGQSELILLQKVQE
          K.EEMKRNDLPETA.IGLLWTCIMNAVEWNKKEELVAEQALKHLKQYAPLLAVFSSQGQSE.I.LQKVQE
Retrocopy K>EEMKRNDLPETAMIGLLWTCIMNAVEWNKKEELVAEQALKHLKQYAPLLAVFSSQGQSEMIFLQKVQE

Parental  YCYDNIHFMKAFQKIVVLFYKADVLSEEAILKWYKEAHVAKGKSVFLDQMKKFVEWLQNAEEESESEGEE
          YCYDNIHFMKAFQKIVVLFYKA.VLSEEAILKWYKEAHVAKGKSVFLDQMKKFVEWLQNAEEESESEGEE
Retrocopy YCYDNIHFMKAFQKIVVLFYKANVLSEEAILKWYKEAHVAKGKSVFLDQMKKFVEWLQNAEEESESEGEE

Parental  N
          N
Retrocopy N

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Pteropus vampyrus was not studied using RNA-Seq expression data.

ChIP-Seq

Pteropus vampyrus was not studied using ChIP-Seq data.

EST

Pteropus vampyrus was not studied using EST data.

TSS

Pteropus vampyrus was not studied using FANTOM5 data.

Lab

retro_pvam_481 was not experimentally validated.

Homology

Retrocopy orthology:

Pteropus vampyrus 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 10 parental genes, and 14 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	ENSPVAG00000008111	1 retrocopy	retro_pvam_773,
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,