RetrogeneDB ID:

retro_vpac_321

Retrocopy
location
Organism:Alpaca (Vicugna pacos)
Coordinates:GeneScaffold_778:402284..403046(-)
Located in intron of:ENSVPAG00000010087
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:FAM192A
Ensembl ID:ENSVPAG00000005973
Aliases:None
Description:family with sequence similarity 192, member A [Source:HGNC Symbol;Acc:29856]


Retrocopy-Parental alignment summary:






>retro_vpac_321
ATGGATGGAGGGGATGACGGTAACCTTGTCATCAAAAAGAGGTTTGTGTCTGAGGCAGAGCTAGATGAACGGTGCAAAAG
GAGGCAAGAAGAATGGGAGAAAGTTCGGAAACCTGAAGATCCTGAAGAATGCCCAGGGGAGGTTTATGACCCTTGGTCTC
TGTATGAAAAGCTACAGGAACAGAAAGACAGGAAGCAGCAGGAGTATGAGGAACAGTTCAAATTCAAAAACACGGTAAGA
GGCTTAGATGAAGATGAGACCAACTTCCTTGATGAGGTTTCTTGGCAGCAGGAACTAACAGAAAAGCAGCAAAGAGAGGA
AGAACTGAAAGAACTAAAGGAATACAGAAGTAATCTCAAAAAGGTTGGAATTTCTCCAGAAAACAAGAAAGAAGTGGAGA
AGAAAGTGACTGTGAAACCCAAAGAAACCAAGTACAAGTTCTCGCAGGCAAAGCTGTTGGCAGGAGCTGTGAAGCCTAAG
AGCTCAGAGAGTGGCAACAGTGTGAAAAGACTGAAATCGGACCCTGACCCAGATGACAAGAATCAAGAAGCCCCACCCTG
CGTGTCTCCTGGAAGCACATCCCTGAGCGGTCCCTCCATCCACTGCCCCTCCGCCGCTGTCTGCATTGGCATCCTCCCAG
GCTTGGGCGCCTACTCCGGGAGCAGCGACTCTGAGTCCAGCTCAGACAGCGAGGGTACCATCAACGCCACCGGCAAGATC
GTCTCCTCCATCTTCCGAACCAACACCTTCCTCGAGGGCCCC

ORF - retro_vpac_321 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 94.09 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMDGGDDGNLVIKKRFVSEAELDERRKRRQEEWEKVRKPEDPEECPEEVYDPRSLYERLQEQKDRKQQEYE
MDGGDDGNLVIKKRFVSEAELDER.KRRQEEWEKVRKPEDPEECP.EVYDP.SLYE.LQEQKDRKQQEYE
RetrocopyMDGGDDGNLVIKKRFVSEAELDERCKRRQEEWEKVRKPEDPEECPGEVYDPWSLYEKLQEQKDRKQQEYE
ParentalEQFKFKNMVRGLDEDETNFLDEVSRQQELIEKQRREEELKELKEYRSNLNKVGISPENKKEVEKKVTVKP
EQFKFKN.VRGLDEDETNFLDEVS.QQEL.EKQ.REEELKELKEYRSNL.KVGISPENKKEVEKKVTVKP
RetrocopyEQFKFKNTVRGLDEDETNFLDEVSWQQELTEKQQREEELKELKEYRSNLKKVGISPENKKEVEKKVTVKP
ParentalIETKNKFSQAKLLAGAVKHKSSESGNSVKRLKSDPDPDDKNQEAPSCVSLGSTSLSGPSIHCPSAAVCIG
.ETK.KFSQAKLLAGAVK.KSSESGNSVKRLKSDPDPDDKNQEAP.CVS.GSTSLSGPSIHCPSAAVCIG
RetrocopyKETKYKFSQAKLLAGAVKPKSSESGNSVKRLKSDPDPDDKNQEAPPCVSPGSTSLSGPSIHCPSAAVCIG
ParentalILPGLGAYSGSSDSESSSDSEGTINATGKIVSSIFRTNTFLEAP
ILPGLGAYSGSSDSESSSDSEGTINATGKIVSSIFRTNTFLE.P
RetrocopyILPGLGAYSGSSDSESSSDSEGTINATGKIVSSIFRTNTFLEGP

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_321 retrocopy.

TSS - click to see more details

Vicugna pacos was not studied using FANTOM5 data.

Lab - click to see more details

retro_vpac_321 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 15 parental genes, and 16 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000022421 retrocopy
retro_btau_1133,
Cavia porcellus ENSCPOG000000013921 retrocopy
retro_cpor_122,
Equus caballus ENSECAG000000093241 retrocopy
retro_ecab_710,
Echinops telfairi ENSETEG000000143791 retrocopy
retro_etel_930,
Homo sapiens ENSG000001727751 retrocopy
retro_hsap_2994,
Gorilla gorilla ENSGGOG000000039381 retrocopy
retro_ggor_2074,
Macaca mulatta ENSMMUG000000134921 retrocopy
retro_mmul_189,
Mus musculus ENSMUSG000000317741 retrocopy
retro_mmus_428,
Nomascus leucogenys ENSNLEG000000027161 retrocopy
retro_nleu_745,
Ochotona princeps ENSOPRG000000069092 retrocopies
retro_opri_175, retro_opri_579,
Pongo abelii ENSPPYG000000073821 retrocopy
retro_pabe_2480,
Pan troglodytes ENSPTRG000000081481 retrocopy
retro_ptro_2025,
Tarsius syrichta ENSTSYG000000133001 retrocopy
retro_tsyr_884,
Tursiops truncatus ENSTTRG000000127911 retrocopy
retro_ttru_1884,
Vicugna pacos ENSVPAG00000005973 1 retrocopy
retro_vpac_321 ,


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