uLTRA Collapsed Iso-Seq Transcripts Track Settings

Non-redundant Transcripts Derived from uLTRA Alignments of Iso-Seq Reads (All PacBio Iso-Seq Tracks)

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Minimum Number of CCS reads associated with isoform (fl_assoc):
Minimum Number of clustered transcripts associated with isoform (count_fl):

Display data as a density graph:

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Data last updated at UCSC: 2023-02-28 20:28:58

Description

Full-Length Non-Chimeric (FLNC) PacBio Iso-Seq reads were aligned against the D. willistoni DwilRefSeq2 genome assembly using uLTRA with the D. willistoni RefSeq gene annotations obtained from NCBI under the Assembly accession number GCF_018902025. Redundant transcripts were collapsed into unique isoforms using the collapse command with the --do-not-collapse-extra-5exons option in IsoSeq v3.

The color of each feature corresponds to the number of Circular Consensus Sequencing (CCS) reads which support the polished transcript:

Color	Number of CCS reads (fl_assoc)
	> 1000
	500-999
	100-499
	50-99
	10-49
	< 10

The PacBio Iso-Seq data were produced by Chinmay P. Rele from the Reed Lab at The University of Alabama.

References

Sahlin K, Mäkinen V. Accurate spliced alignment of long RNA sequencing reads. Bioinformatics. 2021 Jul 24;37(24):4643–51. doi: 10.1093/bioinformatics/btab540.