RetrogeneDB ID: retro_pvam_713

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: GeneScaffold_931:165418..165894(-)
• Located in intron of: ENSPVAG00000005299

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANXA1
• Ensembl ID: ENSPVAG00000006489
• Aliases: None
• Description: annexin A1 [Source:HGNC Symbol;Acc:533]

Sequence

>retro_pvam_713
CAGGGCCTTGGAACTGATGAAGACACTCTGAATGAAATTTTGGCATCAAGGATTAACAGAGAAATTAATATAATATTTAA
AGAAGAATTCAAGAGAAAACTGGCTAAAGACATCACCTCAGACACATTTGGAGATTATCAGAAGCTTTGCTTTCTCTTGC
TAAGGGTGACCGATCAGAGGATCTTGGCATAAATGAGGACTTAGCTGATTCAGATGCCAGGGCATTATATGAAGCAGGAG
AAAGGAGAAAAGGGACAGGTATGAATATGTTCAACACGATTCTTACCACCAAAAGCTACTCCCATCTTCTCAGAGCATTT
CGAAAGTACACCAAGTACAGTCAGCATGATATGAACAAAATTCTGGAACTGGAGATGAAAAGCAATGTTAAGAAATGCTT
TACAACGATTGTAAAGTGTGCCACAAACCAACCAATGTTCTTTGCTGAGAAGCTTTGTCAGGCCATGAAGGGTGCT

Alignment

ORF - retro_pvam_713 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.37 %
• Parental protein coverage: 52.6 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KGLGTDEETLDEILASRTNREIREINRVYREELKRDLAKDITSDTSGDYQK-ALLSLAKGDRSEDIGINE
          .GLGTDE.TL.EILASR.N...REIN....EE.KR.LAKDITSDT.GDYQK.ALLSLAKGDRSED.GINE
Retrocopy QGLGTDEDTLNEILASRIN---REINIIFKEEFKRKLAKDITSDTFGDYQK<ALLSLAKGDRSEDLGINE

Parental  DLADSDARALYEAGERRKGTDVNVFNTILTTRSYPHLRRVFQKYTKYSQHDMNKVLDLEMKGDIEKCFTT
          DLADSDARALYEAGERRKGT..N.FNTILTT.SY.HL.R.F.KYTKYSQHDMNK.L.LEMK....KCFTT
Retrocopy DLADSDARALYEAGERRKGTGMNMFNTILTTKSYSHLLRAFRKYTKYSQHDMNKILELEMKSNVKKCFTT

Parental  IVKCATNKPMFFAEKLHQAMKGA
          IVKCATN.PMFFAEKL.QAMKGA
Retrocopy IVKCATNQPMFFAEKLCQAMKGA

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_713 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000015978	1 retrocopy	retro_btau_544,
Echinops telfairi	ENSETEG00000018299	1 retrocopy	retro_etel_573,
Otolemur garnettii	ENSOGAG00000009311	1 retrocopy	retro_ogar_108,
Pteropus vampyrus	ENSPVAG00000006489	2 retrocopies	retro_pvam_536, retro_pvam_713 ,
Pteropus vampyrus	ENSPVAG00000011401	1 retrocopy	retro_pvam_389,
Pteropus vampyrus	ENSPVAG00000013001	1 retrocopy	retro_pvam_1365,