RetrogeneDB ID: retro_pvam_1460

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_9176:54059..54311(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AKIP1
• Ensembl ID: ENSPVAG00000000411
• Aliases: None
• Description: A kinase (PRKA) interacting protein 1 [Source:HGNC Symbol;Acc:1170]

Sequence

>retro_pvam_1460
TCCCATCTAGAGAAATATTATTCATCTATACCAAAGGAAAGAAGGGCAACCCACATCTATCATTATTACAGAGGGAAGGT
GGAGCTGCACTTGTGCTTGGACATAGGGAATAGTCACAGAAAAGACACATTCCTGGGTCGTGGAGGCCTCTATCAAGTGT
TAGAATGTGCTCCAGAGGCAGCCCAGCCTGCCGAGAACATCTCTAAGGACCCCTACATAGAAGTAGATCTAGGGACCTAT
TCTGTCACTGTG

Alignment

ORF - retro_pvam_1460 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.29 %
• Parental protein coverage: 55.63 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SQCGKYYSSVLEEGGATHVYRYHRGKSKLHLCSDVGNGQRKETSLGLGGIYQAAERALEASQPAENIFKD
          S...KYYSS...E..ATH.Y.Y.RGK..LHLC.D.GN..RK.T.LG.GG.YQ..E.A.EA.QPAENI.KD
Retrocopy SHLEKYYSSIPKERRATHIYHYYRGKVELHLCLDIGNSHRKDTFLGRGGLYQVLECAPEAAQPAENISKD

Parental  LYIEVYPGTYSVTV
          .YIEV..GTYSVTV
Retrocopy PYIEVDLGTYSVTV

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_1460 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006233	1 retrocopy	retro_chof_1889,
Pteropus vampyrus	ENSPVAG00000000411	1 retrocopy	retro_pvam_1460 ,
Rattus norvegicus	ENSRNOG00000013744	1 retrocopy	retro_rnor_1155,