RetrogeneDB ID: retro_pvam_205

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: GeneScaffold_1862:229869..230197(+)
• Located in intron of: ENSPVAG00000010252

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARPP19
• Ensembl ID: ENSPVAG00000004012
• Aliases: None
• Description: cAMP-regulated phosphoprotein, 19kDa [Source:HGNC Symbol;Acc:16967]

Sequence

>retro_pvam_205
ATGTCCGTGGAAGTCCCCGAGGCAGCCTCAGTACAGGAGCAGAAGGAAATGCAAGATAAAGTGACTAGAGAAAGCTGAAG
AAGCAAAATTAAAAGCAAGGTATCCTCATTTGGGACAAAAGCCTGGAGATTCAGATTTCTTACGGAAATGATTGCAGAAA
GGGCAAAAATATTTTAATTCTGGAGATTACAACATGGCTAAAGCAAAAATGAAGAGCAAGCAACTTCCTACTGCAGCCCC
GGAGAAGACAGGTCACCAGTGACCACATCCCCACTCCACGGGACCTTCCTCCGTGGAAGCCATCCCTGTTGCCAGCAAGC
TGGATGGC

Alignment

ORF - retro_pvam_205 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.24 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MSAEVPEAASAEEQKEMED-KVTSPEKAEEAKLKARYPHLGQKPGGSDFLRKRLQKGQKYFDSGDYNMAK
          MS.EVPEA..A..Q...E..K....EKAEEAKLKARYPHLGQKPG.SDFLRK.LQKGQKYF.SGDYNMA.
Retrocopy MSVEVPEA--ASVQEQKEM>KIK*LEKAEEAKLKARYPHLGQKPGDSDFLRK*LQKGQKYFNSGDYNMA-

Parental  AKMKNKQLPAAAA-PDKTEVTGDHIPTPQDLPQRKPSL-VASKLAG
          .K.K.K......A.P....VT.DHIPTP.DLP..KPSL.VASKL.G
Retrocopy -KAKMKSKQLPTA>PRRRQVTSDHIPTPRDLPPWKPSL<VASKLDG

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_205 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 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000011321	2 retrocopies	retro_dord_194, retro_dord_33,
Gorilla gorilla	ENSGGOG00000025250	1 retrocopy	retro_ggor_198,
Macaca mulatta	ENSMMUG00000008344	1 retrocopy	retro_mmul_1001,
Otolemur garnettii	ENSOGAG00000013865	1 retrocopy	retro_ogar_591,
Pongo abelii	ENSPPYG00000006487	2 retrocopies	retro_pabe_120, retro_pabe_1923,
Pteropus vampyrus	ENSPVAG00000004012	1 retrocopy	retro_pvam_205 ,