Transcripts or Assemblies | Count |
---|---|
Total transcript seqs | 7359 |
Fli cDNAs | 834 |
partial cDNAs (ESTs) | 6525 |
Number transcripts with any alignment | 7243 |
Valid gmap alignments | 5650 |
Total Valid alignments | 5650 |
Valid FL-cDNA alignments | 627 |
Valid EST alignments | 5023 |
Number of assemblies | 413 |
Number of subclusters (genes) | 330 |
Number of fli-containing assemblies | 279 |
Number of non-fli-containing assemblies | 134 |
Annotation Classification for Alignment Assemblies | ||||||
---|---|---|---|---|---|---|
FL-assemblies | EST-assemblies | |||||
PASS | fail | PASS | fail | |||
Incorporated | 210 | 83 | ||||
UTR addition | 0 | 0 | ||||
Gene extension | 0 | 0 | 0 | 0 | ||
Internal gene structure rearrangement | 6 | 21 | ||||
-passes homology tests | 0 | 0 | ||||
-fails homology, passes ORF span | 0 | 0 | ||||
Gene Merging | 2 | 6 | 0 | 0 | ||
Gene Splitting | 0 | 0 | ||||
Alt Splicing Isoform | 2 | |||||
-passes homology test | 1 |
| ||||
-fails homology, passes ORF span | 0 | 0 | ||||
New Gene | 0 | 0 | 23 | |||
Alt splice of new gene | 0 | 0 | 0 | 0 | ||
FL-assembly fails gene requirements | 26 | |||||
Antisense | 10 | 6 | ||||
Single-exon EST-assembly incompatible | 16 | |||||
delayed incorporation due to gene merging | 0 | 0 | ||||
delayed incorporation due to gene splitting | 0 | |||||
Total | 413 |
A total of 267 genes mapped to PASA assemblies | |
---|---|
279 FL-assemblies mapped to 224 genes | |
Successful Incorporations by Genes | |
Genes supported by PASA assemblies | 240 |
Genes supported by 229 FL assemblies | 202 |
Genes supported by 68 EST assemblies only (no FL assemblies) | 38 |
Failed Incorporations by Genes | |
Genes failing PASA assembly incorporation | 79 |
of these, 52 genes successfully incorporate other PASA assemblies | |
Genes failing FL assembly incorporation | 46 |
but 24 of these genes incorporate other FL assemblies successfully. | |
Genes failing EST assemblies only | 33 |
Retrieve Lists of Genes Corresponding to Pass and Fail Categories.
Annotation Classification for Alignment Assemblies | ||||||
---|---|---|---|---|---|---|
FL-assemblies | EST-assemblies | |||||
PASS | fail | PASS | fail | |||
Incorporated | 2 | 16 | ||||
UTR addition | 86 | 39 | ||||
Gene extension | 19 | 0 | 4 | 0 | ||
Internal gene structure rearrangement | 6 | 20 | ||||
-passes homology tests | 48 | 12 | ||||
-fails homology, passes ORF span | 0 | 0 | ||||
Gene Merging | 2 | 6 | 0 | 0 | ||
Gene Splitting | 0 | 0 | ||||
Alt Splicing Isoform | 3 | |||||
-passes homology test | 20 |
| ||||
-fails homology, passes ORF span | 0 | 0 | ||||
New Gene | 26 | 0 | 25 | |||
Alt splice of new gene | 8 | 0 | 0 | 2 | ||
FL-assembly fails gene requirements | 26 | |||||
Antisense | 10 | 5 | ||||
Single-exon EST-assembly incompatible | 15 | |||||
delayed incorporation due to gene merging | 0 | 0 | ||||
delayed incorporation due to gene splitting | 0 | |||||
Total | 413 |
A total of 265 genes mapped to PASA assemblies | |
---|---|
279 FL-assemblies mapped to 222 genes | |
Successful Incorporations by Genes | |
Genes supported by PASA assemblies | 238 |
Genes supported by 228 FL assemblies | 200 |
Genes supported by 67 EST assemblies only (no FL assemblies) | 38 |
Failed Incorporations by Genes | |
Genes failing PASA assembly incorporation | 77 |
of these, 50 genes successfully incorporate other PASA assemblies | |
Genes failing FL assembly incorporation | 45 |
but 23 of these genes incorporate other FL assemblies successfully. | |
Genes failing EST assemblies only | 32 |
Retrieve Lists of Genes Corresponding to Pass and Fail Categories.
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