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All posts created by welkin

| posted 13 Apr, 2018 19:04
welkin avatar
welkin
Cluster CU phages do not have an obvious lysin B gene.
Posted in: Cluster CU Annotation Tips → no lysin B
| posted 13 Apr, 2018 19:03
welkin avatar
welkin
lysin A is found within the group of minor tail protein in the left arm, rather than upstream or downstream of all the structural genes.
Posted in: Cluster CU Annotation Tips → lysin A located amidst tail protein
| posted 13 Apr, 2018 18:59
welkin avatar
welkin
Cluster CU contains a phage that was not isolated and sequenced by the SEA-PHAGES program. Its finders annotated the genome differently. We do not curate, update, or QC this genome.

This phage is:
Gsput1
Posted in: Cluster CU Annotation Tips → non SEA-PHAGES genomes
| posted 13 Apr, 2018 18:55
welkin avatar
welkin
Lysin B is not found adjacent to Lysin A in a lysis cassette— instead it is located over in the right arm.
Posted in: Cluster CS Annotation Tips → lysin B in right arm
| posted 13 Apr, 2018 18:54
welkin avatar
welkin
Lysin A, which is a single multi-domain protein in many Actinobacteriophages, is split at the domain boundaries encoded by two adjacent genes in cluster CS. The functions should be reported as "lysin A, whatever the domain is" to indicate that each gene does not encode the full lysin A.
Posted in: Cluster CS Annotation Tips → lysin A in two parts
| posted 13 Apr, 2018 18:53
welkin avatar
welkin
Cluster CS contains some phages that were not isolated and sequenced by the SEA-PHAGES program. Their finders chose a different bp1 than we did, and annotated their genomes differently. We do not curate, update, or QC these genomes.

These phages are:
GMA7 and GTE7
Posted in: Cluster CS Annotation Tips → non SEA-PHAGES genomes
| posted 13 Apr, 2018 18:39
welkin avatar
welkin
Lysin B is not found adjacent to Lysin A in a lysis cassette— instead it is located over in the right arm.
Posted in: Cluster CT Annotations Tips → lysin B in right arm
| posted 13 Apr, 2018 18:36
welkin avatar
welkin
Cluster CT contains a phage that was not isolated and sequenced by the SEA-PHAGES program. Its finders annotated the genome differently. We do not curate, update, or QC this genome.

This phage is:
GTE2
Posted in: Cluster CT Annotations Tips → non SEA-PHAGES genomes
| posted 13 Apr, 2018 18:34
welkin avatar
welkin
Lysin A, which is a single multi-domain protein in many Actinobacteriophages, is split at the domain boundaries encoded by two adjacent genes in cluster CT. The functions should be reported as "lysin A, whatever the domain is" to indicate that each gene does not encode the full lysin A.
Posted in: Cluster CT Annotations Tips → lysin A in two parts
| posted 13 Apr, 2018 18:33
welkin avatar
welkin
Lysin A, which is a single multi-domain protein in many Actinobacteriophages, is split at the domain boundaries encoded by two adjacent genes in cluster CR. The functions should be reported as "lysin A, whatever the domain is" to indicate that each gene does not encode the full lysin A.
Posted in: Cluster CR Annotation Tips → lysin A in two parts