RetrogeneDB ID: retro_vpac_259

Retrocopy location

• Organism: Alpaca (Vicugna pacos)
• Coordinates: GeneScaffold_3397:717509..717835(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSVPAG00000002295
• Aliases: None
• Description: None

Sequence

>retro_vpac_259
CGGAGAATAAAGTCAACATTCAGACCTAAGGGAAGACGTTATGATCAAGAATGTTTCAAGCCAGTTGTGCCTGTGGTTGC
CCACCACGATAAGCAACCTCAACAAAGGGAGCCACCAACTAAAAGTTAGGACATTACACCTGGTCAACAGAAAAAGATGA
AGGAGCATCTGCAGTTCAAGAGCCTGCCCTGGAAGCTAATCAACAGGAACTGGCTCAGCCAGGGACTGGGCGTGAGCGTG
GAGTTGGTCCTGATGTCACGGGGAAGACACTACCAAATCCAGAGCCCATTAAAATGCCAGAAGCAGGCGAAGGGCAACCA
CAGGTT

Alignment

ORF - retro_vpac_259 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.55 %
• Parental protein coverage: 98.11 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RKVKSTYRLRKRSYDQACVNPVQPVVAHGDAQGW--EPPTSSQDFRPGKAK-EDEGAPAVEGPVPEADQR
          R..KST.R...R.YDQ.C..PV.PVVAH.D.Q....EPPT.S.D..PG..K..DEGA.AV..P..EA.Q.
Retrocopy RRIKSTFRPKGRRYDQECFKPVVPVVAHHDKQPQQREPPTKS*DITPGQQK<KDEGASAVQEPALEANQQ

Parental  EVAKPETGHEHDRGVD---GELPKPEPFKIPGAGEGKPQV
          E.A.P.TG.E...G.D.....LP.PEP.K.P.AGEG.PQV
Retrocopy ELAQPGTGRERGVGPDVTGKTLPNPEPIKMPEAGEGQPQV

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Vicugna pacos was not studied using RNA-Seq expression data.

ChIP-Seq

Vicugna pacos was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_vpac_259 retrocopy.

TSS

Vicugna pacos was not studied using FANTOM5 data.

Lab

retro_vpac_259 was not experimentally validated.

Homology

Retrocopy orthology:

Vicugna pacos 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Vicugna pacos	ENSVPAG00000002295	1 retrocopy	retro_vpac_259 ,