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[193485_at] WD domain, G-beta repeats (2 domains)

Description CC4.3 /REP_DB=WormBase Gene ID /WP=CE15742 /GEN=smu-1 /TR=O62120 /GB=CAB04014.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=WD domain, G-beta repeats (2 domains)
Cluster 6grp_highest_10_10 > 94      6grp_high1_10_10 > 58      4grp_highest_8_8 > 25      4grp_high_8_8 > 60      6grp_highest_nonorm > 73      6grp_total > 59      4grp_total > 60      6grp_highest_sub > Cu      6grp_cgc > 18      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 283
1 2 3 4 range
A 506.4
(1.4)
P 		534.4
(2.2)
P 		560.4
(3)
P 		354.4
(-3)
P 		206
B 515.9
(-0)
P 		487.6
(-0.8)
P 		637
(3)
P 		398.3
(-3)
P 		239
C 552.8
(2.1)
P 		569.7
(3)
P 		542.6
(1.5)
P 		460.9
(-3)
P 		109
avr 525
(1.1) 		530.6
(1.3) 		580
(3) 		404.5
(-3) 		176

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 215
1 2 3 4 5 6 range
A 581.3
(1.9)
P 		485.8
(-1.6)
P 		449.6
(-3)
P 		523.5
(-0.2)
P 		473.7
(-2.1)
P 		609.8
(3)
P 		160
B 603.6
(1.2)
P 		566.5
(0.1)
P 		459.9
(-3)
P 		481.6
(-2.4)
P 		539
(-0.7)
P 		664.2
(3)
P 		204
C 559.8
(0.4)
P 		533.4
(-0.5)
P 		459.8
(-3)
P 		469
(-2.7)
P 		525.4
(-0.8)
P 		635.6
(3)
P 		176
avr 581.6
(1.2) 		528.6
(-0.6) 		456.4
(-3) 		491.4
(-1.8) 		512.7
(-1.1) 		636.5
(3) 		180
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 137
1 2 3 4 range
A 184.4
(3)
P 		116
(-0.1)
P 		146.5
(1.3)
P 		51.9
(-3)
P 		133
B 164.5
(3)
P 		120.4
(-0.3)
P 		147.6
(1.7)
P 		84.9
(-3)
P 		80
C 183
(2.7)
P 		163.8
(1.6)
P 		189.1
(3)
P 		77.7
(-3)
P 		111
avr 177.3
(3) 		133.4
(0.5) 		161.1
(2.1) 		71.5
(-3) 		106

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 153
1 2 3 4 5 6 range
A 107.2
(-2.3)
P 		172.8
(3)
P 		97.9
(-3)
P 		132.8
(-0.2)
P 		143
(0.6)
P 		148.5
(1.1)
P 		75
B 210
(1.3)
P 		188.6
(0.4)
P 		111.7
(-3)
P 		127.6
(-2.3)
P 		219
(1.7)
P 		247.7
(3)
P 		136
C 207.5
(2.7)
P 		162.8
(0.5)
P 		117
(-1.9)
P 		94.3
(-3)
P 		170
(0.8)
P 		212.8
(3)
P 		119
avr 174.9
(1.2) 		174.7
(1.2) 		108.9
(-3) 		118.2
(-2.4) 		177.3
(1.4) 		203
(3) 		94
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193485_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.680
Sequence Type Exemplar sequence
Representative Public ID CC4.3 NCBI
Target Description CC4.3 /REP_DB=WormBase Gene ID /WP=CE15742 /GEN=smu-1 /TR=O62120 /GB=CAB04014.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=WD domain, G-beta repeats (2 domains)
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_060878(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060878 NCBI Caenorhabditis elegans Suppressor of Mec and Unc defects family member (smu-1) (smu-1) mRNA, complete cds. 11/11 None
SNAP00000007717 ENSEMBL cdna:SNAP chromosome:CEL140:I:13002347:13012258:1 11/11 None
GENEFINDER00000007720 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:13002347:13012258:1 11/11 None
CC4.3.1 ENSEMBL cdna:known chromosome:CEL140:I:13003951:13012452:1 gene:CC4.3 11/11 None
CC4.3.3 ENSEMBL cdna:known chromosome:CEL140:I:13003961:13020979:1 gene:CC4.3 11/11 None
CC4.3.2 ENSEMBL cdna:known chromosome:CEL140:I:13003961:13012475:1 gene:CC4.3 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:13003939-13012189(+) 100.0 100.0
Public Domain and Genome References
Gene Title WD domain, G-beta repeats (2 domains)
Gene Symbol smu-1
Ensembl CC4.3
Entrez Gene 173175 Entrez gene
SwissProt O62120 EMBL-EBI
WormBase CE15742 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:260063_AT transducin family protein / WD-40 repeat family protein at
CANINE_2:CFAAFFX.3662.1.S1_S_AT similar to smu-1 suppressor of mec-8 and unc-52 homolog cfa
DROSOPHILA_2:1632323_AT dm
DROSGENOME1:142867_AT dm
CHICKEN:GGA.5532.1.S1_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) gga
CHICKEN:GGAAFFX.11539.1.S1_S_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) gga
HG-U133_PLUS_2:218393_S_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HG-U133A:218393_S_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HG-U133A_2:218393_S_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HU35KSUBA:AA476801_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HU35KSUBC:RC_AA252293_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
U133_X3P:G8922678_3P_A_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HG-U95B:48272_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HG-U95B:48401_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HG-U95E:68374_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HG-U133_PLUS_2:228180_AT Smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HG-U133B:228180_AT Smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HG-U133_PLUS_2:239788_AT Smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HG-U133B:239788_AT Smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HG-U95B:46107_AT Smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HG-U95C:65370_AT Smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HG-U95D:67581_AT Smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HU35KSUBA:W27603_AT Smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HU35KSUBB:RC_H70483_AT Smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
HU35KSUBC:RC_W35390_AT Smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
U133_X3P:HS.174021.0.A1_3P_AT Smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
U133_X3P:HS.55533.0.A1_3P_AT Smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) hs
MOUSE430A_2:1432042_A_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) mm
MOE430A:1432042_A_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) mm
MOUSE430_2:1432042_A_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) mm
MOUSE430A_2:1432043_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) mm
MOE430A:1432043_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) mm
MOUSE430_2:1432043_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) mm
MG-U74AV2:160177_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) mm
MG-U74BV2:164589_F_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) mm
MG-U74BV2:163278_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) mm
MG-U74CV2:166478_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) mm
MOE430A:1422442_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) mm
MOUSE430A_2:1422442_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) mm
MOUSE430_2:1422442_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) mm
MU19KSUBB:TC26483_AT Smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) (Smu1), mRNA mm
RG-U34B:RC_AA851226_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) rn
RAE230A:1367935_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) rn
RAT230_2:1367935_AT smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) rn
Protein Similarities
Method ID Description E-Value
blast CAB04014 Hypothetical protein CC4.3 [Caenorhabditis elegans] ref|NP_493279.1| Suppressor of Mec and Unc defects family member (smu-1) [Caenorhabditis elegans] gb|AAK00353.1| SMU-1 [Caenorhabditis elegans] 0.0
blast CAE63459 Hypothetical protein CBG07923 [Caenorhabditis briggsae] 0.0
blast AAH45945 Smu-1 suppressor of mec-8 and unc-52 homolog [Danio rerio] ref|NP_956493.1| smu-1 suppressor of mec-8 and unc-52 homolog [Danio rerio] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 3.7E-5
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 3.2E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 4.4E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 2.7E-12
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.11
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 3.7E-5
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 3.2E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 4.4E-7
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 2.7E-12
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.11
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 3.7E-5
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 3.2E-8
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 5.6E-6
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 2.7E-12
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.11
Sequence
Target Sequence 
>C. ELEGANS:193485_AT
ggagtttgtgctgttcgattctcaaaagataattcacatattttgtcgggtggaaatgat
catgttgtgagagttcatggaatgaagagcggaaaatgtttgaaggaaatgcgtgggcac
tcgagttatattacagatgtcagatattccgatgagggaaatcatattatctcatgttca
acagatggttcaattcgtgtttggcatggaaaatcgggtgaatgcctttcaacattccgt
gttggaagtgaagattatccaatattaaatgtgattccaattccgaaaagtgatccacca
caaatgattgtatgcaatcgatccaataccctctacgttgttaatatttctggacaggtg
gttcgtacgatgacgtcaggaaagcgtgagaaaggagacttcatcaactgcattttatcg
ccgaaaggagaatgggcatacgcaattgcagaggacggtgtcatgtactgttttatggta
ttatcgggtaccctggaaactactcttcccgtgacagaacgtcttccaattggtttggct
catcatccacatcagaatctcatcgcttca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGTTTGTGCTGTTCGATTCTCAA 548 517 937 Antisense
GGAAATGCGTGGGCACTCGAGTTAT 195 527 1041 Antisense
ATCCAATACCCTCTACGTTGTTAAT 2 19 1257 Antisense
ATTTCTGGACAGGTGGTTCGTACGA 645 13 1282 Antisense
TCATCAACTGCATTTTATCGCCGAA 353 619 1337 Antisense
GAGGACGGTGTCATGTACTGTTTTA 188 405 1387 Antisense
TATCGGGTACCCTGGAAACTACTCT 458 1 1418 Antisense
AACTACTCTTCCCGTGACAGAACGT 493 139 1434 Antisense
GACAGAACGTCTTCCAATTGGTTTG 99 367 1449 Antisense
TTGGTTTGGCTCATCATCCACATCA 611 707 1466 Antisense
TCCACATCAGAATCTCATCGCTTCA 505 587 1482 Antisense
Sequence Source Affymetrix Proprietary Database