RetrogeneDB ID: retro_pvam_817

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_12359:24997..25320(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ATPIF1
• Ensembl ID: ENSPVAG00000017615
• Aliases: None
• Description: ATPase inhibitory factor 1 [Source:HGNC Symbol;Acc:871]

Sequence

>retro_pvam_817
ATGGCAGTCACTGCGTTGGCGGTGCGGATGCCCCTCGCTGTGTGGGGCGTGAGGGCCACGCAAGCCCAAAGCGTCAGCTC
CGACCGGTCAGGGGATCTCGACTCCGACGTGGGCTCAGTCCGGGAGGCCAGAGGGGCCTTCGGGAAAAGAGAGCAGGCCA
AAGAGAAACGATACTTCTGAGCACAAACTCGGGAACGACTGGCAGCCTTGGAGAAACACCACGAAGAAGAGATCAGTCAT
CACATTAAGGAGACTGAGCATCTGCAGGAAGAAATCAGACGGCACAGTGCACTATCAAGAAACTAAAAGAGTGTGGTGAT
GAT

Alignment

ORF - retro_pvam_817 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.23 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAVTALAARLRLGVWGVRATQAQSFSSGRSGNLDSGAGSIREAGGAFGKREQAEEERYFRARTKEQLAAL
          MAVTALA.R..L.VWGVRATQAQS.SS.RSG.LDS..GS.REA.GAFGKREQA.E.RYF.A.T.E.LAAL
Retrocopy MAVTALAVRMPLAVWGVRATQAQSVSSDRSGDLDSDVGSVREARGAFGKREQAKEKRYF*AQTRERLAAL

Parental  KKHHEEEISHHIKEIERLQKEIERHKQ-TIKKLKEHDDD
          .KHHEEEISHHIKE.E.LQ.EI.RH...TIKKLKE..DD
Retrocopy EKHHEEEISHHIKETEHLQEEIRRHSA<TIKKLKECGDD

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_817 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 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000032458	2 retrocopies	retro_cfam_1777, retro_cfam_651,
Dasypus novemcinctus	ENSDNOG00000015460	1 retrocopy	retro_dnov_2592,
Myotis lucifugus	ENSMLUG00000000170	1 retrocopy	retro_mluc_363,
Mustela putorius furo	ENSMPUG00000015536	1 retrocopy	retro_mputfur_1570,
Mus musculus	ENSMUSG00000054428	2 retrocopies	retro_mmus_2516, retro_mmus_908,
Otolemur garnettii	ENSOGAG00000010337	2 retrocopies	retro_ogar_116, retro_ogar_268,
Pteropus vampyrus	ENSPVAG00000017615	1 retrocopy	retro_pvam_817 ,
Rattus norvegicus	ENSRNOG00000013300	1 retrocopy	retro_rnor_2655,
Sorex araneus	ENSSARG00000010860	1 retrocopy	retro_sara_458,
Ictidomys tridecemlineatus	ENSSTOG00000020766	1 retrocopy	retro_itri_1240,