RetrogeneDB ID: retro_pvam_1367

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_7118:74591..74997(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSPVAG00000013840
• Aliases: None
• Description: None

Sequence

>retro_pvam_1367
AGAGCCACGGAACCACCTCCAGGTCCGGTCTTGGTCCATGCTGCCCATCGCACCACCTGCCTGCCCCGCATCCGCCGCCA
CCGCCATGGGAGTGCAGGTGGAGACCATCTCTCCCAGGGACCGGCTCACCTTCCCGAAGCATGGCCAGACCTGCGTGATA
CACTACATTGGGATGCTTGAAGATGGAAATAAATTAGATTCCTCCCGGGACAGAAACAAGCTCTTTAAGTTTATGCTAGG
CAAACAGGTGATTCGAGGCTGGGAAGAAAGGATTGCCCAGATGAGTGTGAGTCAGAGAGCCAAACTTACCATCTCCCCAG
ACTATGCCTATGGTGCCACTGGGCACCCAGGCATCATCCCACCAAATGCCACTCTCATCTTTGACGTGGAGCTTCGAAAA
CTGGAA

Alignment

ORF - retro_pvam_1367 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.13 %
• Parental protein coverage: 93.15 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RATEPPPS-RSWSTPPIAPPACPASAATAMGVQVETISPGDGRTFPKRGQTCVVHYTGMLEDGKKFDSSR
          RATEPPP..RSWS..PIAPPACPASAATAMGVQVETISP.D..TFPK.GQTCV.HY.GMLEDG.K.DSSR
Retrocopy RATEPPPG>RSWSMLPIAPPACPASAATAMGVQVETISPRDRLTFPKHGQTCVIHYIGMLEDGNKLDSSR

Parental  DRNKPFKFMLGKQEVIRGWEEGVAQMSVGQRAKLTISPDYAYGATGHPGIIPPNATLVFDVELLKLE
          DRNK.FKFMLGKQ.VIRGWEE..AQMSV.QRAKLTISPDYAYGATGHPGIIPPNATL.FDVEL.KLE
Retrocopy DRNKLFKFMLGKQ-VIRGWEERIAQMSVSQRAKLTISPDYAYGATGHPGIIPPNATLIFDVELRKLE

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_1367 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 13 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000008303	4 retrocopies	retro_btau_1220, retro_btau_1265, retro_btau_128, retro_btau_1760,
Ciona savignyi	ENSCSAVG00000006859	1 retrocopy	retro_csav_11,
Echinops telfairi	ENSETEG00000007454	1 retrocopy	retro_etel_2059,
Felis catus	ENSFCAG00000026097	2 retrocopies	retro_fcat_168, retro_fcat_751,
Homo sapiens	ENSG00000088832	1 retrocopy	retro_hsap_1198,
Gorilla gorilla	ENSGGOG00000001729	3 retrocopies	retro_ggor_1494, retro_ggor_2344, retro_ggor_933,
Macaca mulatta	ENSMMUG00000015996	1 retrocopy	retro_mmul_10,
Monodelphis domestica	ENSMODG00000019554	2 retrocopies	retro_mdom_151, retro_mdom_733,
Mustela putorius furo	ENSMPUG00000017946	1 retrocopy	retro_mputfur_1649,
Pteropus vampyrus	ENSPVAG00000013840	1 retrocopy	retro_pvam_1367 ,
Sus scrofa	ENSSSCG00000007188	1 retrocopy	retro_sscr_98,
Tursiops truncatus	ENSTTRG00000003547	3 retrocopies	retro_ttru_1227, retro_ttru_802, retro_ttru_904,
Vicugna pacos	ENSVPAG00000011511	1 retrocopy	retro_vpac_171,