RetrogeneDB ID: retro_vpac_15

Retrocopy location

• Organism: Alpaca (Vicugna pacos)
• Coordinates: GeneScaffold_373:1184648..1185902(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSVPAG00000006705
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: FZD3
• Ensembl ID: ENSVPAG00000000294
• Aliases: None
• Description: frizzled family receptor 3 [Source:HGNC Symbol;Acc:4041]

Sequence

>retro_vpac_15
GAGATCTGCGTGGGCCAGAACACGTCCGACGGCTCCGGGGGCCCCGGCGGCGGCCCCACCGCTTACCCCACCGCGCCCTA
CATGCCCGACCTGCCCTTCACCGCCCTGTCCCCGGGTGCCGCTGACGGTAGGGGCCGCTCCGCTTTCCCCTTCTCGTGCC
CCCGCCAGCTCAAGGTGCCCCCCTACCTGGGCTACCGCTTTCTGGGCGAGCGCGACTGCGGCGCCCCTTGCGAGCCGGGC
CGTGCCAACGGCCTCATGTACTTTAAGGAGGAGGAGAGGCGCTTCGCCCGCCTCTGGGTGGGCGTGTGGTCGGTACTGTG
CTGCGCCTCGACACTCTTCACCGTGCTCACCTACCTAGTGGACATGCGGCGTTTCAGCTACCCGGAGCGGCCCATCATCT
TCCTTTCGGGCTGCTACTTCATGGTGGCCGTGGCGCACGTGGCCGGCTTCCTGCTGGAGGACCGCGCCGTGTGCGTGGAG
CGCTTCTCAGACGACGGCTACCGCACGGTGGCGCAGGGCACCAAGAAGGAGGGCTGCACCATCCTTTTCATGGTGCTCTA
CTTCTTCGGCATGGCCAGTTCCATCTGGTGGGTCATTTTGTCGCTCACTTGGTTCCTGGCGGCCGGTATGAAGTGGGGCC
ACGAGGCCATCGAGGCCAACTCGCAGTACTTCCACCTGGCCGCGTGGGCAGTGCCCGCCGTCAAGACTATCACCATCCTG
GCCATGGGCCAGGTGGACGGGGACCTGCTCAGCGGGGTGTGCTACGTGGGCCTGTCCAGCGTGGACGCGCTGCGAGGCTT
TGTGCTGGCACCCCTGTTCGTCTACCTCTTCATCGGCACGTCCTTCCTGCTGGCAGGCTTCGTGTCGCTCTTCCGCATCC
GCACCATCATGAAGCACGACGGCACCAAGACCGAGAAGCTGGAGAAGCTCATGGTGCGCATCGGCGTCTTCAGCGTGCTC
TACACCGTGCCGGGCACCATCGTCCTGGCCTGTTACTTTTACGAGCAGGCCTTCCGCGAACACTGGGAGCGCACCTGGCT
CCTGCAGACGTGCAAGAGCTACGCGGTGCCCTGCCCGCCCGGCCACTTCCCGCCCATGAGCCCCGACTTCACCGTCTTCA
TGATCAAGTACCTGATGACCATGATCGTAGGCATCACCACTGGCTTCTGGATCTGGTCCGGCAAAACCCTGCAGTCGTGG
CGCCGCTTCTACCACAGACTCAGCCACAGCAGCAAGGGGGAGACTGCAGTATGA

Alignment

ORF - retro_vpac_15 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.09 %
• Parental protein coverage: 52.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YGFWCPRELKIDPDLGYSFLHVRD----CSPPCPN--MYFRREELSFARYFIGLISIICLSATLFTFLTF
          ..F.CPR.LK..P.LGY.FL..RD....C.P...N..MYF..EE..FAR...G..S..C...TLFT.LT.
Retrocopy FPFSCPRQLKVPPYLGYRFLGERDCGAPCEPGRANGLMYFKEEERRFARLWVGVWSVLCCASTLFTVLTY

Parental  LIDVTRFRYPERPIIFYAVCYMMVSLIFFIGFLLEDR-VACNASSPAQYKASTVTQGSHNKACTMLFMVL
          L.D..RF.YPERPIIF...CY.MV......GFLLEDR.V.....S...Y...TV.QG.....CT.LFMVL
Retrocopy LVDMRRFSYPERPIIFLSGCYFMVAVAHVAGFLLEDRAVCVERFSDDGYR--TVAQGTKKEGCTILFMVL

Parental  YFFTMAGSVWWVILTITWFLAAVPKWGSEAIEKKALLFHASAWGIPGTLTIILLAMNKIEGDNISGVCFV
          YFF.MA.S.WWVIL..TWFLAA..KWG.EAIE.....FH..AW..P...TI..LAM....GD..SGVC.V
Retrocopy YFFGMASSIWWVILSLTWFLAAGMKWGHEAIEANSQYFHLAAWAVPAVKTITILAMGQVDGDLLSGVCYV

Parental  GLYDVDALRYFVLAPLCLYVVVGVSLLLAGIISLNRVRIEIPLEKENQDKLVKFMIRIGVFSILYLVPLL
          GL..VDALR.FVLAPL..Y...G.S.LLAG..SL.R.R...........KL.K.M.RIGVFS.LY.VP..
Retrocopy GLSSVDALRGFVLAPLFVYLFIGTSFLLAGFVSLFRIRTIMKHDGTKTEKLEKLMVRIGVFSVLYTVPGT

Parental  VVIGCYFYEQAYRGIWETTWIQERCREYHIPCPYQVTQMSHPDLILFLMKYLMALIVGIPSIFWVGSKKT
          .V..CYFYEQA.R..WE.TW....C..Y..PCP........PD...F..KYLM..IVGI...FW..S.KT
Retrocopy IVLACYFYEQAFREHWERTWLLQTCKSYAVPCPPGHFPPMSPDFTVFMIKYLMTMIVGITTGFWIWSGKT

Parental  CFEWASFFH
          ...W..F.H
Retrocopy LQSWRRFYH

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_15 retrocopy.

TSS

Vicugna pacos was not studied using FANTOM5 data.

Lab

retro_vpac_15 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	ENSVPAG00000000294	1 retrocopy	retro_vpac_15 ,