RetrogeneDB ID: retro_pvam_1433

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_8471:42177..42900(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSPVAG00000013502
• Aliases: None
• Description: None

Sequence

>retro_pvam_1433
CGAGATGCTACTGAGTTAAATGCAGCCAATTATACAGTGTGGTGTTTTCAAAGAGTTCTCTTAAAGTCATTTCAAAACTA
TCTGCATGAAGAAATGAACTACGTCACTGCAATAATAGGAGAACAGTCCCAAGTTTGGCATCATAGATATTAGTGGAATG
GCTAAAAGATCCATCTCAGGAGCTTGAGTTTATTGCTGATATTCTTAATCAAGATGCAAAGAATTATCATGCCTGGCAAT
ATCGACAGTGGGTTATTCATGACTTTAAACTTTGGAATAATGAGCTGCAGTATATAGCCCAACTTCTTAAAGAGGACATG
AGAAATAACTTTTTCTGGAACTAAAGATACTTCAAAATTTCTAACACTAGCTACAATGATCATGCTATATTGGAGAGAGA
AGTCCAGTACACTCTGGAAATAATCAAATGAGTACCATGGAATGAAAGTGCATGGAACTATATGAAAGGGGTTTTGCAGG
ATTGTGGTCTTTCTAAATATTCCAATCTATTGAATCAATTGCTTGATTTACAACAAAGTCACAGTTCCCTCTACCTAATT
GCCTTTCTTGTGGATATCTATGAAGATAAGCTAGAAAACCAATATGACAACAAGGAGGACAGTCTTAATAAAGCATTAGA
GTTAATGTGAAATCCTAGCTGAAGAAAAGGACACTATAAAAAAGGAATATTGGAGATATATTGGAAGATCCCTTCAAAGC
AAA

Alignment

ORF - retro_pvam_1433 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.85 %
• Parental protein coverage: 65.43 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  RDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRR-VLVEWLKDPSQELEFI
          RDA.ELNAANYTVW.F.RVLLKS.Q..LHEEMNY.TAII.EQ....QVW.H.R..LVEWLKDPSQELEFI
Retrocopy RDATELNAANYTVWCFQRVLLKSFQNYLHEEMNYVTAIIGEQS---QVW-HHR<ILVEWLKDPSQELEFI

Parental  ADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAILERE
          ADILNQDAKNYHAWQ.RQWVI..FKLW.NELQY..QLLKED.RNN..WN.RYF.ISNT..YND.AILERE
Retrocopy ADILNQDAKNYHAWQYRQWVIHDFKLWNNELQYIAQLLKEDMRNNFFWN*RYFKISNTS-YNDHAILERE

Parental  VQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDN
          VQYTLE.IK.VP.NESAWNY.KG.LQD.GLSKY.NLLNQLLDLQ.SHSS.YLIAFLVDIYED.LENQ.DN
Retrocopy VQYTLEIIK*VPWNESAWNYMKGVLQDCGLSKYSNLLNQLLDLQQSHSSLYLIAFLVDIYEDKLENQYDN

Parental  KEDILNKALEL-CEILAKEKDTIRKEYWRYIGRSLQSK
          KED.LNKALEL.CEILA.EKDTI.KEYWRYIGRSLQSK
Retrocopy KEDSLNKALEL>CEILAEEKDTIKKEYWRYIGRSLQSK

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_1433 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.

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000003201	2 retrocopies	retro_btau_1431, retro_btau_1768,
Canis familiaris	ENSCAFG00000005385	1 retrocopy	retro_cfam_941,
Homo sapiens	ENSG00000168522	1 retrocopy	retro_hsap_805,
Macaca mulatta	ENSMMUG00000017158	1 retrocopy	retro_mmul_1078,
Monodelphis domestica	ENSMODG00000010003	1 retrocopy	retro_mdom_1656,
Nomascus leucogenys	ENSNLEG00000012979	1 retrocopy	retro_nleu_2408,
Pteropus vampyrus	ENSPVAG00000013502	2 retrocopies	retro_pvam_1157, retro_pvam_1433 ,
Tursiops truncatus	ENSTTRG00000008870	1 retrocopy	retro_ttru_579,