Clustering for non-redundant sequence set

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Sequence set
DECODER, ORFfinder, Repeat Masker
Check ORF and for repeats in ORF
DDS, Clustal W
Clustering for non-redundant sequence set
Motif Discovery
BLASTPSEG, E0.1 complete linkage clustering
Find homologous sequences
Maximum density subgraph BLOSUM 50 gt 20 aa
ungapped pairwise alignment
Find conserved homologous regions
Remove regions matching to known motifs HMMER
?Pfam BLASTP ? ProDom InterProScan ? InterPro and
other motif databases
New motif candidates
Visual inspection of motif candidates
Re-check predicted reading frames if necessary
Motif Exploration
Motif expansion by HMMER search of
SwissProt/TrEMBL
Multiple sequence alignment Secondary structure
analysis Cellular localization Chromsomal
localization
Literature search, Interpretation of results
Update control of other public motif
database Re-filtering of motif candidates Reconcil
e motifs with newly reported motifs
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0610039A16 D6Wsu147evar(MMU)
2810011M06
ING1Ap33(HSA)
LOC51147(HSA)
ING1L(HSA)
Similar to 1700027H23Rik(MMU)
ING2(MMU)
Similar to 1810018M11Rik(MMU)
ING2(HSA)
ING1(HSA)
2310010G05 D6Wsu147e(MMU)
ING1fragment 1(HSA)
1810018M11 1810018M11Rik(MMU)
ING1Cp24(HSA)
1700027H23 1700027H23Rik(MMU)
ING1C(HSA)
my036(HSA)
ING1isoform1(MMU)
14013(ATHA)
CG9293(DEML)
ING1Bp24(HSA)
YNL097C(SCER)
ING1p33(HSA)
YHR090C(SCER)
ING1p47(HSA)
SPAC3G9.08(S.pombe)
ING1Bp33(HSA)
ING3(HSA)
ING1Ap47(HSA)
ING3(MMU)
ING1fragment 2(HSA)
ING3p47 variant 2(HSA)
CG7379(DEML)
ING3p47 variant 1(HSA)
130013A07 130013A07Rik(MMU)
CG6632(DEML)
DKFZP586C1218(HSA)