RetrogeneDB - Retrocopy retro_vpac

                        
>retro_vpac_57
ATGCCTTTCTTTGGGAATACATTCAGTCCGAAGAAGACGCCCCCTCGGAAGTCGGCTTCTCTCTCCAGCCTGCATAATTT

GGATCGGTCAACCTGGGAGTGGAGCTGGGTCCTGACTACGGAACCCCCACTATGAACCTGGCGGGGCAAAGCCTGAAGTT

TGAAAACGGCCAGTTGATAGCAGAGACAGGGATTAGTCGGGGTGTGGACCGGAGGGAGGCTCAGCGCCTCCGGAGACGGA

ACCAGCAGTTGGAGGAAGAAACAATCTCTTGCGGCTGAGGTGGACATCCTGCTGGACATGGTGAGC

ORF - retro_vpac_57 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	85.05 %
Parental protein coverage:	81.25 %
Number of stop codons detected:	0
Number of frameshifts detected:	3

Retrocopy - Parental Gene Alignment:

                                ParentalMPLFGNTFSPKKTPPRKSASLSNLHNLDRSTRE-VELGLDYGTPPPMNPAGKSLKFENGPWIAETGISGG
MP.FGNTFSPKKTPPRKSASLS.LHNLDRST.E.VELG.DYGTP..MN.AG.SLKFENG..IAETGIS.G
RetrocopyMPFFGNTFSPKKTPPRKSASLSSLHNLDRSTWE<VELGPDYGTPT-MNLAGQSLKFENGQLIAETGISRG
ParentalVDRREAQRLRRRNQQLEEE-NNLLRLK-VDILLDMLS
VDRREAQRLRRRNQQLEEE.NNLLRL..VDILLDM.S
RetrocopyVDRREAQRLRRRNQQLEEE<NNLLRLR<VDILLDMVS

                            

                            Legend:
                            
                                *Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide

                        

RNA-Seq - click to see more details

Vicugna pacos was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Vicugna pacos was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_vpac_57 retrocopy.

TSS - click to see more details

Vicugna pacos was not studied using FANTOM5 data.

Lab - click to see more details

retro_vpac_57 was not experimentally validated.

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 10 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000001384	2 retrocopies	retro_cfam_1396, retro_cfam_852,
Dasypus novemcinctus	ENSDNOG00000010982	1 retrocopy	retro_dnov_875,
Homo sapiens	ENSG00000100211	1 retrocopy	retro_hsap_2344,
Gorilla gorilla	ENSGGOG00000013226	1 retrocopy	retro_ggor_1781,
Myotis lucifugus	ENSMLUG00000003757	2 retrocopies	retro_mluc_1128, retro_mluc_2608,
Mustela putorius furo	ENSMPUG00000013150	1 retrocopy	retro_mputfur_1186,
Nomascus leucogenys	ENSNLEG00000015153	1 retrocopy	retro_nleu_349,
Otolemur garnettii	ENSOGAG00000028533	1 retrocopy	retro_ogar_1072,
Pan troglodytes	ENSPTRG00000014373	1 retrocopy	retro_ptro_1716,
Vicugna pacos	ENSVPAG00000001484	1 retrocopy	retro_vpac_57 ,

	RetrogeneDB ID:	retro_vpac_57
Retrocopy location	Organism:	*Alpaca (Vicugna pacos)*
	Coordinates:	GeneScaffold_1322:678066..678372(-)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	CBY1
	Ensembl ID:	ENSVPAG00000001484
	Aliases:	None
	Description:	chibby homolog 1 (Drosophila) [Source:HGNC Symbol;Acc:1307]

Parental	MPLFGNTFSPKKTPPRKSASLSNLHNLDRSTRE-VELGLDYGTPPPMNPAGKSLKFENGPWIAETGISGG
	MP.FGNTFSPKKTPPRKSASLS.LHNLDRST.E.VELG.DYGTP..MN.AG.SLKFENG..IAETGIS.G
Retrocopy	MPFFGNTFSPKKTPPRKSASLSSLHNLDRSTWE<VELGPDYGTPT-MNLAGQSLKFENGQLIAETGISRG

Parental	VDRREAQRLRRRNQQLEEE-NNLLRLK-VDILLDMLS
	VDRREAQRLRRRNQQLEEE.NNLLRL..VDILLDM.S
Retrocopy	VDRREAQRLRRRNQQLEEE<NNLLRLR<VDILLDMVS

*	Stop codon
>	Forward frameshift by one nucleotide
<	Reverse frameshift by one nucleotide

RetrogeneDB ID:

retro_vpac_57