RetrogeneDB ID: retro_pvam_245

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: GeneScaffold_2141:149363..149660(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSPVAG00000016198
• Aliases: None
• Description: None

Sequence

>retro_pvam_245
AGCACAAGTGCCTCTTCACCTGTTGCTTTAGACCTCCTGCCTCACCTCTGCTGGAAATAGACTTCAACTGCTTCTGCCCC
ACTAGTCAATCCTGCACCTTCACTGGCTTCTTCAAATCCATGGACTGTAAAGGTACCTTCTGCAAGAAGAGCTGCTGCTC
TTGCCACCCCATGGGCTGTGCCAAGTGTGCCCAGGGCTGTATCTGCAAAGGAGCATTAAACAAGTGCAGCTGCTGTGCCT
GATATCAGGGAGAGTTTGCTCCCAGATGTAAATAGAACAATATGTACAAACCTGCAT

Alignment

ORF - retro_pvam_245 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.66 %
• Parental protein coverage: 83.19 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  STSSSSPLASGLLPHLYSKWTPTAPAPLLAPAPAPAPANAKTADAPPARRAAAPAAPWAVLGAPRAVSAK
          STS.SSP.A..LLPHL..K.T.TA.APL..PAP..A..N..T...P.ARRAAA.A.PWAV...PRAVSAK
Retrocopy STSASSPVALDLLPHLCWK*TSTASAPLVNPAPSLASSNPWTVKVPSARRAAALATPWAVPSVPRAVSAK

Parental  EHRTSAAAVRDVKKSLLPDVNRAPCSNLH
          EH.TSAAAV.D...SLLPDVNR..C.NLH
Retrocopy EH*TSAAAVPDIRESLLPDVNRTICTNLH

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_245 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Macaca mulatta	ENSMMUG00000016109	2 retrocopies	retro_mmul_1207, retro_mmul_2513,
Procavia capensis	ENSPCAG00000007865	1 retrocopy	retro_pcap_77,
Pteropus vampyrus	ENSPVAG00000016198	1 retrocopy	retro_pvam_245 ,