RetrogeneDB ID: retro_pvam_1000

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_21609:3478..3798(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PYURF
• Ensembl ID: ENSPVAG00000003575
• Aliases: None
• Description: PIGY upstream reading frame [Source:HGNC Symbol;Acc:44317]

Sequence

>retro_pvam_1000
AGTTGCAGCTGGCTCACCTCAGCGATGCATGGGGACACACACGCCCTCCTCTGTGGTTGCCTCTAGGTGTCTGCGAGTGT
AGAGGTTATGGCCATCTTCCCAGAAGAGCAAGAGAACTGGGGAACCACACAGCACCTTTAACCTGTTCGTGGTGTGCCCG
CTTTCCAAGAAGCCGCTCAGATATGAAGCATAGACAAATGAATTGATTAATGAAGAGTTGGGAATAGCCTATCCAATTAT
TGATGGAATTCTTCATATGATACCACAAGAAGCTAGGATGACACATCAAAATAAGAAGCAAGAAGATGATGGAGCAGCAC

Alignment

ORF - retro_pvam_1000 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.39 %
• Parental protein coverage: 96.49 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ACGKLASALRR-TRAPASAVARRCLRASGSRLSADKSERTGEPHRTFDLSLLEFLVCPLSKKPLRYEAST
          .C..L.SA....T..P.S.VA.RCLR......S..KS.RTGEPH.TF.L....F.VCPLSKKPLRYEA.T
Retrocopy SCSWLTSAMHG>THTPSSVVASRCLRV*RLWPSSQKSKRTGEPHSTFNL----FVVCPLSKKPLRYEA*T

Parental  NELINEELGIAYPIIDGIPNMXXXXXXMTRQNKKQEE-MEQH
          NELINEELGIAYPIIDGI..M......MT.QNKKQE..MEQH
Retrocopy NELINEELGIAYPIIDGILHMIPQEARMTHQNKKQED>MEQH

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_1000 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Pteropus vampyrus	ENSPVAG00000003575	1 retrocopy	retro_pvam_1000 ,