RetrogeneDB ID: retro_vpac_567

Retrocopy location

• Organism: Alpaca (Vicugna pacos)
• Coordinates: scaffold_4755:73106..73438(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSVPAG00000009295
• Aliases: None
• Description: None

Sequence

>retro_vpac_567
ATGGAGCCCCTGTACCAGTCAGGGCACAAGCAGGTCCACGAGACCCAGTCTCACGCGGGATGCCTGGGGACAGCAGAGAA
CAGTCTTTGCGCTTAGCAGAAAATCAAATCCAAGCAAGCATAGGCCAGATACTCAGCATCTAGAGCGTCTGGAGATTCTG
TCCAGCAAGAAGCCCCCTAACAAAAGACAGCATGCCAGACTTCATGTTGACCAGTTAAAGTGTGACTTCCAGCACCTGCA
GACTGCCCTCATACACATCCAGCCCGGCGATGCACAAGGGGACGGCAGGAGAGACAGTGAGAAGAGCTCTGTCTCACACC
TTCACCGCTAAC

Alignment

ORF - retro_vpac_567 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.83 %
• Parental protein coverage: 53.33 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MEPLYQQTHKQVHEIQSHMGRLETAD-KQSLHLVENEIQASLDQIFI-HLERLEILSSKEPPNKRQNAKL
          MEPLYQ..HKQVHE.QSH.G.L.TA...QSL.L.EN.IQAS..QI...HLERLEILSSK.PPNKRQ.A.L
Retrocopy MEPLYQSGHKQVHETQSHAGCLGTAE<EQSLRLAENQIQASIGQILS<HLERLEILSSKKPPNKRQHARL

Parental  RVDQLKYDVQHLQTALRNFQ-HRRYTREQQERQREEL-LSRTFTTN
          .VDQLK.D.QHLQTAL...Q..RR.TR..QERQ.EEL.LS.TFT.N
Retrocopy HVDQLKCDFQHLQTALIHIQ<ARRCTRGRQERQ*EEL<LSHTFTAN

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_567 retrocopy.

TSS

Vicugna pacos was not studied using FANTOM5 data.

Lab

retro_vpac_567 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000002709	1 retrocopy	retro_mluc_752,
Pan troglodytes	ENSPTRG00000009323	1 retrocopy	retro_ptro_1290,
Vicugna pacos	ENSVPAG00000009295	1 retrocopy	retro_vpac_567 ,