RetrogeneDB ID: retro_pvam_874

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_14344:690..1003(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAB31
• Ensembl ID: ENSPVAG00000016514
• Aliases: None
• Description: RAB31, member RAS oncogene family [Source:HGNC Symbol;Acc:9771]

Sequence

>retro_pvam_874
AAATCAAGTATTGTATGTCGATTTGTCCAAGATTACTTTGACTACAACATCGGCCTGATGCTGGGGCATCTTTTATGACC
AAAATCGTGCCTTGTGGAAATGAACTTCATAAGTTCCTCATCTTGGACACCGTTGATCAGGAACAGTTTCATTCACTGGC
TCCCATGTACTATCATGGATCCTTTACAGATGTCATAGTGTATGATGTTACCAAACAGGAGTCATTCCTTACCTTGAAGA
ATTGGTGAAAGAACGTGGTCCAGAAAACATTCTAATGGCTATTGCTGGGAACAAATGTGATCCCTCAGATATT

Alignment

ORF - retro_pvam_874 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.36 %
• Parental protein coverage: 58.06 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KSSIVCRFVQDHFDHNIS-PTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYD
          KSSIVCRFVQD.FD.NI..P..GASFMTK.VPCGNELHKFLI.DT..QE.FHSLAPMYY.GS...VIVYD
Retrocopy KSSIVCRFVQDYFDYNIG<PDAGASFMTKIVPCGNELHKFLILDTVDQEQFHSLAPMYYHGSFTDVIVYD

Parental  ITKQDSFHTLKKW-VKELKEHGPENIVMAIAGNKCDLSDI
          .TKQ.SF.TLK.W.VKE....GPENI.MAIAGNKCD.SDI
Retrocopy VTKQESFLTLKNW<VKE---RGPENILMAIAGNKCDPSDI

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_874 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004529	2 retrocopies	retro_cjac_1178, retro_cjac_1179,
Microcebus murinus	ENSMICG00000002882	1 retrocopy	retro_mmur_1453,
Macaca mulatta	ENSMMUG00000005692	1 retrocopy	retro_mmul_1557,
Monodelphis domestica	ENSMODG00000021443	3 retrocopies	retro_mdom_1491, retro_mdom_1766, retro_mdom_994,
Pteropus vampyrus	ENSPVAG00000016514	1 retrocopy	retro_pvam_874 ,