RetrogeneDB ID: retro_pvam_773

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_113:322839..323564(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BZW1
• Ensembl ID: ENSPVAG00000008111
• Aliases: None
• Description: basic leucine zipper and W2 domains 1 [Source:HGNC Symbol;Acc:18380]

Sequence

>retro_pvam_773
AAAAAGAAGTTTGAGCCTACACAGTTTCAAGACTGTATTATTCAAAGCTTATCTAAAACTGGTACTGATGTTGAAGCAGT
AGCAGTTTCTTGATGCTTCTGAAGCAAAACTTGATTACCACCAATATGCAGAAACGCCCTTTGACATCCTGGTGGCCAGC
AGAATGCTGGCCGCAGGTGGTATGCTGGCAGATGACATGATGCGTACAGATGTCTGTGTGTTAACAGCACAAGACCTAGA
AGGCATGCAAGCATTTGCTCAGGTCTTTAAAAAGTTAATCAGGCGCTACAAATACCTGGAGAAAGGTTTTGAAGATCAAG
TACAAAAGCTGCAGCTGTTCTAAAAGGTTTTTCCGAGTCGGAGAGAAACAAGCTGGCTATGTGTACTGGTGTTCTTCTGG
CTAATGGAACGCTTGATGCATCCGTTCTCCATAGCATTTAGAATGAGAATTTGGTTAAGGAACGGGTTTCAGCAGCTTTT
GCTATGAAACTCTTTAAATCATGGGGGAATGAAAAGGATATCAGTGCAGTAGCTGCAGGTCTTTGGAAATTCGGCATGGA
TAACAGACTGATGGAACTTTTTTCCTGCCAAAAAACAAAGCGTTGAACACTTCACAAAGTACTTCACGCGGGCAGGCTTG
AAAGAGCTTTCAGAATACGTTTGGAATCAGCAAACCATAGGAGCTCGTAAGGAACTCCAGAATAGAACTTCAAGAACAGA
TGTCT

Alignment

ORF - retro_pvam_773 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.05 %
• Parental protein coverage: 73.41 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  KERFDPTQFQDCIIQGLTETGTDLEAVA-KFL-DASGAKLDYRRYAETLFDILVAGGMLAPGGTLADDMM
          K..F.PTQFQDCIIQ.L..TGTD.EAVA..FL.DAS.AKLDY..YAET.FDILVA..MLA.GG.LADDMM
Retrocopy KKKFEPTQFQDCIIQSLSKTGTDVEAVA<SFL<DASEAKLDYHQYAETPFDILVASRMLAAGGMLADDMM

Parental  RTDVCVFAAQEDLETMQAFAQVFNKLIRRYKYLEKGFEDEVKKLLLF-LKGFSESERNKLAMLTGVLLAN
          RTDVCV..AQ.DLE.MQAFAQVF.KLIRRYKYLEKGFED.V.KL.LF.LKGFSESERNKLAM.TGVLLAN
Retrocopy RTDVCVLTAQ-DLEGMQAFAQVFKKLIRRYKYLEKGFEDQVQKLQLF<LKGFSESERNKLAMCTGVLLAN

Parental  GTLNASILNSLYNENLVKEGVSAAFAVKLFKSWINEKDINAVAASLRKVSMDNRLMEL-FPANKQSVEHF
          GTL.AS.L.S..NENLVKE.VSAAFA.KLFKSW.NEKDI.AVAA.L.K..MDNRLMEL.FPA.KQSVEHF
Retrocopy GTLDASVLHSI*NENLVKERVSAAFAMKLFKSWGNEKDISAVAAGLWKFGMDNRLMEL>FPAKKQSVEHF

Parental  TKYFTEAGLKELSEYVRNQQTIGARKELQK-ELQEQMS
          TKYFT.AGLKELSEYV.NQQTIGARKELQ..ELQEQMS
Retrocopy TKYFTRAGLKELSEYVWNQQTIGARKELQN>ELQEQMS

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_773 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 4 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003543	8 retrocopies	retro_chof_1519, retro_chof_2060, retro_chof_2092, retro_chof_2451, retro_chof_2517, retro_chof_689, retro_chof_726, retro_chof_838,
Myotis lucifugus	ENSMLUG00000001653	2 retrocopies	retro_mluc_1350, retro_mluc_2561,
Pteropus vampyrus	ENSPVAG00000008111	1 retrocopy	retro_pvam_773 ,
Pteropus vampyrus	ENSPVAG00000014571	1 retrocopy	retro_pvam_481,