RetrogeneDB ID: retro_vpac_241

Retrocopy location

• Organism: Alpaca (Vicugna pacos)
• Coordinates: GeneScaffold_319:1383062..1383437(-)
• Located in intron of: ENSVPAG00000009136

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANXA2
• Ensembl ID: ENSVPAG00000007888
• Aliases: None
• Description: annexin A2 [Source:HGNC Symbol;Acc:537]

Sequence

>retro_vpac_241
TCTATCAAACTGTCTACTGTTTACGAAAGTCTGTGCAGGCGCAGTTTAGAAGGTGACCACTGTGAACCCCCAAATGCATA
CAGGTCAGTCAAAGTGTACTCCAGCTTTGATGCTGAGCCAGATGCTTTGAACATTGAAATGGCCATCAAGATTAAAGGTG
TAGATGAGGTTACCATCGCTAATATTCTGACCAACTGCAGTAATGAGCAGAGACAGAATATTACTTTCGCCTTTCAAGGA
AGGACCAATAAGGAATTTGCTTCAGCACTGAAGTCAGCCTTGTCTGGCCACCCCAAGAAGGTGATTTGGTACGTTCTGAA
AGCACCTGCTCAGTGGGAGGAGTCCAAGCTGAAAGCCTGCTCCATGAAGGGGCTC

Alignment

ORF - retro_vpac_241 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.4 %
• Parental protein coverage: 53.91 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SFKMSTVHEILCKLSLEGDHSTPASAYGSVKAYTNFDAERDALNIETAIKTKGVDEVTIVNILTNRSNEQ
          S.K.STV.E.LC..SLEGDH..P..AY.SVK.Y..FDAE.DALNIE.AIK.KGVDEVTI.NILTN.SNEQ
Retrocopy SIKLSTVYESLCRRSLEGDHCEPPNAYRSVKVYSSFDAEPDALNIEMAIKIKGVDEVTIANILTNCSNEQ

Parental  RQDIAFAYQRRTKKELASALKSALSGHLETVILGLLKTPAQYDASELKA-SMKGL
          RQ.I.FA.Q.RT.KE.ASALKSALSGH...VI...LK.PAQ...S.LKA.SMKGL
Retrocopy RQNITFAFQGRTNKEFASALKSALSGHPKKVIWYVLKAPAQWEESKLKACSMKGL

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_241 retrocopy.

TSS

Vicugna pacos was not studied using FANTOM5 data.

Lab

retro_vpac_241 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 11 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000016686	3 retrocopies	retro_cfam_1631, retro_cfam_367, retro_cfam_707,
Felis catus	ENSFCAG00000007862	2 retrocopies	retro_fcat_594, retro_fcat_709,
Macropus eugenii	ENSMEUG00000008980	3 retrocopies	retro_meug_1000, retro_meug_312, retro_meug_389,
Myotis lucifugus	ENSMLUG00000002464	3 retrocopies	retro_mluc_1569, retro_mluc_2223, retro_mluc_2431,
Monodelphis domestica	ENSMODG00000011604	1 retrocopy	retro_mdom_1471,
Mustela putorius furo	ENSMPUG00000000762	2 retrocopies	retro_mputfur_73, retro_mputfur_79,
Otolemur garnettii	ENSOGAG00000009952	1 retrocopy	retro_ogar_3510,
Pan troglodytes	ENSPTRG00000007132	2 retrocopies	retro_ptro_2106, retro_ptro_81,
Tupaia belangeri	ENSTBEG00000001276	1 retrocopy	retro_tbel_3335,
Tarsius syrichta	ENSTSYG00000003719	1 retrocopy	retro_tsyr_2086,
Vicugna pacos	ENSVPAG00000007888	2 retrocopies	retro_vpac_241 , retro_vpac_27,