RetrogeneDB ID: retro_vpac_141

Retrocopy location

• Organism: Alpaca (Vicugna pacos)
• Coordinates: GeneScaffold_2068:309905..310139(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MIEN1
• Ensembl ID: ENSVPAG00000000476
• Aliases: None
• Description: migration and invasion enhancer 1 [Source:HGNC Symbol;Acc:28230]

Sequence

>retro_vpac_141
ACGTCCATAGCGCCCCCTGGGGAGATAGAGGCGGGCAGTGGGGTCTGCATGGCAGTTGAGTACTATGAGCCCTGCGGCTC
CGAGGTGACCTACCTGGAGGTGGCGAGTGCTGTGAAGGAGCAGTATCCTGGCATGGAGATGGTGTCACGACTCAGCAGCA
CAGGGGCCTTGGAAATCAATGGACATCTGGCATTCTTCAAGCTGGAGAATGGCTTTCCTAATGAGAAAGATCTG

Alignment

ORF - retro_vpac_141 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.95 %
• Parental protein coverage: 71.3 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TSVAPPPGEIEPGSGVRIVVEYCEPCGFEATYLELASAVKEQYPGIEIESRLGGTGAFEIEINGQLVFSK
          TS.APP.GEIE.GSGV...VEY.EPCG.E.TYLE.ASAVKEQYPG.E..SRL..TGA...EING.L.F.K
Retrocopy TSIAPP-GEIEAGSGVCMAVEYYEPCGSEVTYLEVASAVKEQYPGMEMVSRLSSTGA--LEINGHLAFFK

Parental  LENGGFPYEKDL
          LEN.GFP.EKDL
Retrocopy LEN-GFPNEKDL

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_141 retrocopy.

TSS

Vicugna pacos was not studied using FANTOM5 data.

Lab

retro_vpac_141 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.

---

Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000000023	1 retrocopy	retro_etel_8,
Vicugna pacos	ENSVPAG00000000476	1 retrocopy	retro_vpac_141 ,