RetrogeneDB ID: retro_pvam_337

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: GeneScaffold_2633:457043..457259(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C2orf76
• Ensembl ID: ENSPVAG00000011615
• Aliases: None
• Description: chromosome 2 open reading frame 76 [Source:HGNC Symbol;Acc:27017]

Sequence

>retro_pvam_337
CCATTCAGAAATTACAAATATGACAAACTAAAAGTTGTTCATCAAGCATATAAATCAAAGACAAATGAACTTGTGTTGAG
TTTGAAAGATGCTGACAGAATCCTGTTAAAAAAAGACAGCACTTTAAAAGCGGCTAGAATCACCAATGAAAATGAAATTG
CATTACTCTATGAAGAAGAGTATAAGAACTACAAAGCTAATCCCATTTCATCCTGG

Alignment

ORF - retro_pvam_337 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.56 %
• Parental protein coverage: 58.06 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PFRNYKYDKLKIIHQAHKSKTNELVLSLEDDDRLLLKEDSTLKAAGIANETEIAFFCEEDYKNYKANPIS
          PFRNYKYDKLK..HQA.KSKTNELVLSL.D.DR.LLK.DSTLKAA.I.NE.EIA...EE.YKNYKANPIS
Retrocopy PFRNYKYDKLKVVHQAYKSKTNELVLSLKDADRILLKKDSTLKAARITNENEIALLYEEEYKNYKANPIS

Parental  SW
          SW
Retrocopy SW

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_337 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 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008507	2 retrocopies	retro_amel_1062, retro_amel_1693,
Bos taurus	ENSBTAG00000010599	1 retrocopy	retro_btau_965,
Canis familiaris	ENSCAFG00000004896	2 retrocopies	retro_cfam_1119, retro_cfam_1727,
Equus caballus	ENSECAG00000002063	1 retrocopy	retro_ecab_384,
Myotis lucifugus	ENSMLUG00000004031	1 retrocopy	retro_mluc_1204,
Mustela putorius furo	ENSMPUG00000000943	1 retrocopy	retro_mputfur_726,
Mus musculus	ENSMUSG00000026388	1 retrocopy	retro_mmus_947,
Pteropus vampyrus	ENSPVAG00000011615	1 retrocopy	retro_pvam_337 ,
Sus scrofa	ENSSSCG00000015718	1 retrocopy	retro_sscr_311,