RetrogeneDB ID: retro_pvam_162

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: GeneScaffold_1694:250220..250405(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: YPEL1
• Ensembl ID: ENSPVAG00000013638
• Aliases: None
• Description: yippee-like 1 (Drosophila) [Source:HGNC Symbol;Acc:12845]

Sequence

>retro_pvam_162
AAAATGACAGACTCCAAAACTTTCCAAGGTTATCTGACAAATTGTCACTGGATTTACTGCTATACCTATTGCAAAGCTCC
TTAAGCAAATCATGATATGTTGATCTCCAAGCCCTGTCATGTCAGTCATCATAAAGCCCACTTCTTTAATTCTGGGTTAA
TGTGGGCTGTGCTTCGGCAGAGGAC

Alignment

ORF - retro_pvam_162 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.14 %
• Parental protein coverage: 52.1 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KMTKSKTFQAYLPNCHRTYSCVHCRAHLANHDELISKSFQGSQGRAYLFNS-VVNVGCGPAEE
          KMT.SKTFQ.YL.NCH..Y....C.A..ANHD.LISK....S...A..FNS..VNVGC..AE.
Retrocopy KMTDSKTFQGYLTNCHWIYCYTYCKAP*ANHDMLISKPCHVSHHKAHFFNS<WVNVGCASAED

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_162 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000001397	1 retrocopy	retro_acar_93,
Callithrix jacchus	ENSCJAG00000015755	1 retrocopy	retro_cjac_597,
Dasypus novemcinctus	ENSDNOG00000024482	1 retrocopy	retro_dnov_13,
Echinops telfairi	ENSETEG00000008187	1 retrocopy	retro_etel_1965,
Pteropus vampyrus	ENSPVAG00000013638	1 retrocopy	retro_pvam_162 ,
Tursiops truncatus	ENSTTRG00000016725	1 retrocopy	retro_ttru_1895,