a Clones associated with existing or novel MGI genes after detailed cluster consideration by MGI curators

b For FANTOM2 clones associated with MGI genes, a singleton is defined as the only FANTOM2 clone associated with that particular gene. Some of these singletons were clustered with other FANTOM2 sequences but were separated by curators. Many of these sequences overlap with non-RIKEN transcript sequences

c Clones associated with existing or novel MGI genes without detailed cluster analysis by curators. Associations to existing MGI genes were established only in the absence of conflicting relationships to MGI genes for all cluster members. Novel genes were created only for multi-clone clusters in which all cluster members mapped to the same mouse chromosome

d Clones loaded without MGI gene associations. All are FANTOM2-new clones, and most are singletons (single clone in a cluster). Non-singleton clones from this set are either part of ambiguous MGI-associated clusters (multiple MGI genes represented) or are novel gene candidates but have chromosome mapping discrepancies for some cluster members

e For FANTOM2 clones not associated with MGI genes, a singleton is defined as a cluster containing only one clone