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Table 1 Gene and pathogen accessions used as reference sequences for read mapping

From: Towards the validation of high-throughput sequencing (HTS) for routine plant virus diagnostics: measurement of variation linked to HTS detection of citrus viruses and viroids

Accession Name Length
Arabidopsis thaliana Gene locus identifier Citrus sinensis accession Gene symbol Arabidopsis thaliana gene name Citrus sinensis gene name  
At2g28390 XM_006488024.3 SAND SAND family protein Vacuolar fusion protein MON1 homolog (LOC102625488) 2415
At5g08290 XM_006484464.3 DIM1 DIM1 homolog/YLS8 Thioredoxin-like protein YLS8 (LOC102629695) 727
At2g32170 XM_006481276.3 N/A Unknown protein Carnosine N-methyltransferase-like (LOC102617870) 1773
At5g15710 XM_006482390.2 FBOX F-box family protein F-box/kelch-repeat protein At5g15710 (LOC102621205) 4479
At3g53090 XM_025099888.1 UPL7 Ubiquitin-protein ligase 7 E3 ubiquitin-protein ligase UPL7 (LOC102621690) 3888
At5g25760 XM_006476013.2 UBC21 Ubiquitin-conjugating enzyme 21 Protein PEROXIN-4 (LOC102618324) 1029
At3g01150 XM_025099846.1 PTB1 Polypyrimidine tract-binding protein 1 Polypyrimidine tract-binding protein homolog 1 (LOC102618721) 1708
At1g13440 XM_006476919.3 GAPC2 Glyceraldehyde-3-phosphate dehydrogenase C2 Glyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic (LOC102624117) 1464
At4g27960 XM_006490521.3 UBC9 Ubiquitin conjugating enzyme 9 Ubiquitin-conjugating enzyme E2 10 (LOC102614401) 961
At3g18780 XM_006464503.3 ACT2 Actin-2 Actin-7 (LOC102577980) 1786
At5g60390 XM_006485840.3 EF-1a Elongation factor 1-alpha Elongation factor 1-alpha (LOC102613486) 1870
At1G20010 XM_006473602.3 TUB Beta-Tubulin Tubulin beta-6 chain (LOC102631140) 1756
Genbank accession   Pathogen abbreviation Pathogen name   
KU883265   CTV Citrus tristeza virus B390-5 RB   19,270
MK033511   CTV Citrus tristeza virus GFMS12-8 T68   19,246
MH108976.1   CTLV Citrus tatter leaf virus isolate TL101   6494
MT720885   CiVA Citrus virus A RNA1 isolate 1.8   6690
MT720886   CiVA Citrus virus A RNA2 isolate 1.8   2731
KY110716.1   HSVd Hop stunt viroid strain R140902-7   302
KY110717.1   HSVd Hop stunt viroid strain R120621-2 (Cachexia)   295
KY110718.1   CDVd Citrus dwarfing viroid strain R140910-12   297
KY110721.1   CEVd Citrus exocortis viroid strain R140902-18   372