RetrogeneDB ID: retro_pvam_351

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: GeneScaffold_268:304192..304431(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SRP9
• Ensembl ID: ENSPVAG00000008142
• Aliases: None
• Description: signal recognition particle 9kDa [Source:HGNC Symbol;Acc:11304]

Sequence

>retro_pvam_351
ATGCCACAGTACCAGACCTTCAAGAAGTTCAGACATGCAGCTGAAAAGGCTTATCTTGCCGATGCTTTGAAACTGCATGC
GGTTCACAAATGTAGACATTCTTATGAGAGTCAGTGTAGTAAAGTAACAGGAGATTTGGTTTGTTTGGTGTATAGACCAA
CCAAGCTCAAAATGTATAGAAGATTGAGAAATTTCAGTCAACTAATGTGATCGTGGTAGCCAAGGAATCTTGTAGTGTT

Alignment

ORF - retro_pvam_351 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.41 %
• Parental protein coverage: 94.19 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MPQYQTWEEFSRAAEKLYLADPMKARVVLKYRHSDGSLCIKVTDDLVCLVYR-TDQAQDVKKIEKFHSQL
          MPQYQT...F..AAEK.YLAD..K...V.K.RHS..S.C.KVT.DLVCLVYR.T.QAQ.V.KIEKF.S..
Retrocopy MPQYQTFKKFRHAAEKAYLADALKLHAVHKCRHSYESQCSKVTGDLVCLVYR<TNQAQNV*KIEKFQSTN

Parental  MRLMVAKESRSV
          ....VAKES.SV
Retrocopy V-IVVAKESCSV

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_351 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 4 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000012291	1 retrocopy	retro_etel_272,
Otolemur garnettii	ENSOGAG00000001752	1 retrocopy	retro_ogar_230,
Pteropus vampyrus	ENSPVAG00000008142	2 retrocopies	retro_pvam_1064, retro_pvam_351 ,
Tupaia belangeri	ENSTBEG00000005634	3 retrocopies	retro_tbel_1490, retro_tbel_4067, retro_tbel_4739,