RetrogeneDB ID: retro_vpac_289

Retrocopy location

• Organism: Alpaca (Vicugna pacos)
• Coordinates: GeneScaffold_392:72974..73928(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: API5
• Ensembl ID: ENSVPAG00000012428
• Aliases: None
• Description: apoptosis inhibitor 5 [Source:HGNC Symbol;Acc:594]

Sequence

>retro_vpac_289
CATAAAGATGCCTATCAAGTGATATTGGATGGTGTCAAAGGTGGTACCAAGGAAAAAAGATTAGCAGCTCAGTTTATTCC
GAAATTCTTTAAGCATTTTCCAGAATTGGCTGATTCTGCTATCAATGCACAGTTAGACCTCTGTGAGGATGAAGATGTAT
CAATCCGACGGCAAGCAATTAAAGAGCTGCCTCAATTTGCCACTGGAGAAAATCTTCCCCGAGTGGCAGATATACTAACC
CAACTCTTGCAGACAGATGACTCTGCAGAATTTAATTTAGTGAACAACGCCCTATTAAGTATATTTAAGATGGATGCAAA
AGGGACTTTAGGTGGCTTGTTCAGCCAAATACTTCAAGGAGAGGACATTGTTAGAGAAAGGGCAATCAAATTTCTTTCCA
CAAAACTTAAGACTTTACCAGATGAAGTCTTAACAAAGGAAGTAGAGGAACTTATACTAACTGAATCCAAAAAGGTTCTA
GAAGATGTGACTGGAGAAGAATTTGTCCTGTTCATGAAGATACTTTCTGGGTTAAAAAGCTTACAGACAGTGAGTGGAAG
ACAGCAACTTGTAGAGTTGGTGGCTGAGCAGGCTGACCTGGAACAAACCTTCAATCCCTCGGATCCTGACTGTGTGGACA
GGCTCTTACAGTGCACTCGGCAGGCATTTCCCCTCTTCTCTAAAAACGTGCATTCCACAAGGTTTGTGACTTACTTCTGT
GAGCAAGTTCTCCCTAACCTTGGTTCCTTGACTACCCCAGTGGAGGGTCTTGATATACAGTTGGAGGTATTGAAACTGTT
GGCCGAAATGAGTTCATTTTGCGGTGACATGGAAAAGCTAGAAACAAATTTAAGGAAACTGTTTGATAAGTTATTGGAGT
ACATGCCTCTCCCTCCAGAAGAAGCAGAAAATGGAGAGAATGCTGGTAATGAAGAGCCTAAGCTGCAGTTCAGC

Alignment

ORF - retro_vpac_289 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.11 %
• Parental protein coverage: 62.8 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  HKDAYQVILDGVKGGTKEKRLAAQFIPKFFKHFPELADSAINAQLDLCEDEDVSIRRQAIKELPQFATGE
          HKDAYQVILDGVKGGTKEKRLAAQFIPKFFKHFPELADSAINAQLDLCEDEDVSIRRQAIKELPQFATGE
Retrocopy HKDAYQVILDGVKGGTKEKRLAAQFIPKFFKHFPELADSAINAQLDLCEDEDVSIRRQAIKELPQFATGE

Parental  NLPRVADILTQLLQTDDSAEFNLVNNALLSIFKMDAKGTLG-LFSQILQGEDIVRE-AIKFLSTKLKTLP
          NLPRVADILTQLLQTDDSAEFNLVNNALLSIFKMDAKGTLG.LFSQILQGEDIVRE.AIKFLSTKLKTLP
Retrocopy NLPRVADILTQLLQTDDSAEFNLVNNALLSIFKMDAKGTLGGLFSQILQGEDIVRERAIKFLSTKLKTLP

Parental  D-VLTKEVEELILTESKKVLEDVTGEEFVLFMKILSG-KSLQTVSGRQQLVELVAEQADLEQTFNPSDPD
          D.VLTKEVEELILTESKKVLEDVTGEEFVLFMKILSG.KSLQTVSGRQQLVELVAEQADLEQTFNPSDPD
Retrocopy DEVLTKEVEELILTESKKVLEDVTGEEFVLFMKILSGLKSLQTVSGRQQLVELVAEQADLEQTFNPSDPD

Parental  CVDRLLQCTRQAVPLFSKNVHSTRFATYFCEQVLPNLGSLTTPVEGLDIQLEVLKLLAEMSSFCGDMEKL
          CVDRLLQCTRQA.PLFSKNVHSTRF.TYFCEQVLPNLGSLTTPVEGLDIQLEVLKLLAEMSSFCGDMEKL
Retrocopy CVDRLLQCTRQAFPLFSKNVHSTRFVTYFCEQVLPNLGSLTTPVEGLDIQLEVLKLLAEMSSFCGDMEKL

Parental  ETNLRKLFDKLLEYMPLPPEEAENGENAGNEEPKLQFS
          ETNLRKLFDKLLEYMPLPPEEAENGENAGNEEPKLQFS
Retrocopy ETNLRKLFDKLLEYMPLPPEEAENGENAGNEEPKLQFS

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_289 retrocopy.

TSS

Vicugna pacos was not studied using FANTOM5 data.

Lab

retro_vpac_289 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000011993	1 retrocopy	retro_cpor_861,
Myotis lucifugus	ENSMLUG00000013546	1 retrocopy	retro_mluc_245,
Macaca mulatta	ENSMMUG00000008827	1 retrocopy	retro_mmul_947,
Mus musculus	ENSMUSG00000027193	1 retrocopy	retro_mmus_2908,
Pongo abelii	ENSPPYG00000003345	1 retrocopy	retro_pabe_3805,
Vicugna pacos	ENSVPAG00000012428	1 retrocopy	retro_vpac_289 ,