hub GCF_000002765.5 genome assembly shortLabel malaria parasite P. falciparum (3D7 2016 refseq) longLabel malaria parasite P. falciparum (3D7 2016 refseq)/Plasmodium falciparum 3D7/GCF_000002765.5_GCA_000002765 genome assembly useOneFile on email hclawson@ucsc.edu descriptionUrl html/GCF_000002765.5_GCA_000002765.description.html genome GCF_000002765.5 taxId 36329 groups groups.txt description malaria parasite P. falciparum (3D7 2016 refseq) twoBitPath GCF_000002765.5.2bit twoBitBptUrl GCF_000002765.5.2bit.bpt chromSizes GCF_000002765.5.chrom.sizes.txt chromAliasBb GCF_000002765.5.chromAlias.bb chromAuthority ucsc organism GCA_000002765 Apr. 2016 defaultPos NC_037283.1:1097312-1107312 scientificName Plasmodium falciparum 3D7 htmlPath html/GCF_000002765.5_GCA_000002765.description.html blat dynablat-01.soe.ucsc.edu 4040 dynamic GCF/000/002/765/GCF_000002765.5 transBlat dynablat-01.soe.ucsc.edu 4040 dynamic GCF/000/002/765/GCF_000002765.5 isPcr dynablat-01.soe.ucsc.edu 4040 dynamic GCF/000/002/765/GCF_000002765.5 track assembly longLabel Assembly shortLabel Assembly visibility pack colorByStrand 150,100,30 230,170,40 color 150,100,30 altColor 230,170,40 bigDataUrl bbi/GCF_000002765.5_GCA_000002765.assembly.bb type bigBed 6 html html/GCF_000002765.5_GCA_000002765.assembly searchIndex name searchTrix ixIxx/GCF_000002765.5_GCA_000002765.assembly.ix url https://www.ncbi.nlm.nih.gov/nuccore/$$ urlLabel NCBI Nucleotide database: group map track cytoBandIdeo shortLabel Chromosome Band (Ideogram) longLabel Ideogram for Orientation group map visibility dense type bigBed 4 + bigDataUrl bbi/GCF_000002765.5_GCA_000002765.cytoBand.bb track gc5Base shortLabel GC Percent longLabel GC Percent in 5-Base Windows group map visibility full autoScale Off maxHeightPixels 128:36:16 graphTypeDefault Bar gridDefault OFF windowingFunction Mean color 0,0,0 altColor 128,128,128 viewLimits 30:70 type bigWig 0 100 bigDataUrl bbi/GCF_000002765.5_GCA_000002765.gc5Base.bw html html/GCF_000002765.5_GCA_000002765.gc5Base track tanDups shortLabel Tandem Dups longLabel Paired identical sequences compositeTrack on visibility hide type bigBed 12 group map html html/GCF_000002765.5_GCA_000002765.tanDups track tandemDups parent tanDups on shortLabel Tandem Dups longLabel Paired exactly identical sequence survey over entire genome assembly bigDataUrl bbi/GCF_000002765.5_GCA_000002765.tandemDups.bb type bigBed 12 track simpleRepeat shortLabel Simple Repeats longLabel Simple Tandem Repeats by TRF group varRep visibility dense type bigBed 4 + bigDataUrl bbi/GCF_000002765.5_GCA_000002765.simpleRepeat.bb html html/GCF_000002765.5_GCA_000002765.simpleRepeat track refSeqComposite compositeTrack on shortLabel NCBI RefSeq longLabel RefSeq gene predictions from NCBI group genes visibility pack type bigBed dragAndDrop subTracks allButtonPair on dataVersion INSDC submitter (2022-10-28) html html/GCF_000002765.5_GCA_000002765.refSeqComposite priority 2 track ncbiRefSeq parent refSeqComposite on color 12,12,120 altColor 120,12,12 shortLabel RefSeq All type bigGenePred labelFields name,geneName,geneName2 defaultLabelFields geneName2 searchIndex name searchTrix ixIxx/GCF_000002765.5_GCA_000002765.ncbiRefSeq.ix bigDataUrl bbi/GCF_000002765.5_GCA_000002765.ncbiRefSeq.bb longLabel NCBI RefSeq genes, curated and predicted sets (NM_*, XM_*, NR_*, XR_*, NP_* or YP_*) idXref ncbiRefSeqLink mrnaAcc name baseColorUseCds given baseColorDefault genomicCodons priority 1 track ncbiRefSeqPredicted color 12,12,120 parent refSeqComposite on shortLabel RefSeq Predicted longLabel NCBI RefSeq genes, predicted subset (XM_* or XR_*) type bigGenePred labelFields name,geneName,geneName2 defaultLabelFields geneName2 searchIndex name searchTrix ixIxx/GCF_000002765.5_GCA_000002765.ncbiRefSeqPredicted.ix idXref ncbiRefSeqLink mrnaAcc name bigDataUrl bbi/GCF_000002765.5_GCA_000002765.ncbiRefSeqPredicted.bb baseColorUseCds given baseColorDefault genomicCodons priority 3 track ncbiRefSeqOther color 32,32,32 parent refSeqComposite on shortLabel RefSeq Other longLabel NCBI RefSeq other annotations (not NM_*, NR_*, XM_*, XR_*, NP_* or YP_*) priority 4 searchIndex name searchTrix ixIxx/GCF_000002765.5_GCA_000002765.ncbiRefSeqOther.ix bigDataUrl bbi/GCF_000002765.5_GCA_000002765.ncbiRefSeqOther.bb type bigBed 12 + labelFields gene skipEmptyFields on urls GeneID="https://www.ncbi.nlm.nih.gov/gene/$$" MIM="https://www.ncbi.nlm.nih.gov/omim/$$" HGNC="http://www.genenames.org/cgi-bin/gene_symbol_report?hgnc_id=$$" FlyBase="http://flybase.org/reports/$$" WormBase="http://www.wormbase.org/db/gene/gene?name=$$" RGD="https://rgd.mcw.edu/rgdweb/search/search.html?term=$$" SGD="https://www.yeastgenome.org/locus/$$" miRBase="http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=$$" ZFIN="https://zfin.org/$$" MGI="http://www.informatics.jax.org/marker/$$" track ncbiRefSeqPsl priority 5 parent refSeqComposite off shortLabel RefSeq Alignments longLabel RefSeq Alignments of RNAs type bigPsl searchIndex name bigDataUrl bbi/GCF_000002765.5_GCA_000002765.bigPsl.bb indelDoubleInsert on indelQueryInsert on showDiffBasesAllScales . showDiffBasesMaxZoom 10000.0 showCdsMaxZoom 10000.0 showCdsAllScales . baseColorDefault diffCodons pslSequence no baseColorUseSequence lfExtra baseColorUseCds table given color 0,0,0 track cpgIslands compositeTrack on shortLabel CpG Islands longLabel CpG Islands (Islands < 300 Bases are Light Green) group regulation visibility pack type bigBed 4 + html html/GCF_000002765.5_GCA_000002765.cpgIslands track cpgIslandExt parent cpgIslands off shortLabel CpG Islands longLabel CpG Islands (Islands < 300 Bases are Light Green) type bigBed 4 + priority 1 bigDataUrl bbi/GCF_000002765.5_GCA_000002765.cpgIslandExt.bb track cpgIslandExtUnmasked parent cpgIslands on shortLabel Unmasked CpG longLabel CpG Islands on All Sequence (Islands < 300 Bases are Light Green) type bigBed 4 + priority 2 bigDataUrl bbi/GCF_000002765.5_GCA_000002765.cpgIslandExtUnmasked.bb track windowMasker shortLabel WM + SDust longLabel Genomic Intervals Masked by WindowMasker + SDust group varRep visibility dense type bigBed 3 bigDataUrl bbi/GCF_000002765.5_GCA_000002765.windowMasker.bb html html/GCF_000002765.5_GCA_000002765.windowMasker