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[181398_s_at]

Description B0546.2 /REP_DB=WormBase Gene ID /WP=CE19346 /TR=O44438 /GB=AAB92011.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 96      6grp_high1_10_10 > 68      4grp_high_8_8 > 11      6grp_highest_nonorm > 93      6grp_total > 69      4grp_total > 13      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 353
1 2 3 4 range
A 443
(0.1)
P 		402.7
(-0.6)
P 		263.6
(-3)
M 		608.9
(3)
P 		345
B 427.4
(-0.7)
P 		360
(-2.2)
P 		327.9
(-3)
P 		582.6
(3)
P 		255
C 432.5
(0.6)
P 		255.7
(-3)
P 		278.5
(-2.5)
P 		552.3
(3)
P 		297
avr 434.3
(-0) 		339.5
(-2) 		290
(-3) 		581.3
(3) 		291

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 349
1 2 3 4 5 6 range
A 296.9
(-2.4)
P 		373.8
(-1.1)
P 		261.8
(-3)
P 		294.6
(-2.4)
P 		386.7
(-0.8)
P 		608.1
(3)
P 		346
B 430.4
(-0.6)
P 		313.8
(-2.9)
P 		343.6
(-2.3)
P 		310.3
(-3)
P 		436.1
(-0.5)
P 		610.3
(3)
P 		300
C 435.8
(0.1)
P 		365.1
(-1.7)
P 		334.4
(-2.4)
P 		311.7
(-3)
P 		342.7
(-2.2)
P 		553.3
(3)
P 		242
avr 387.7
(-1.3) 		350.9
(-2) 		313.3
(-2.8) 		305.5
(-3) 		388.5
(-1.3) 		590.6
(3) 		285
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 92
1 2 3 4 range
A 161.3
(3)
P 		87.4
(-1.8)
P 		68.9
(-3)
M 		89.1
(-1.7)
P 		92
B 136.3
(3)
P 		88.9
(-1.7)
P 		76
(-3)
P 		124.1
(1.8)
P 		60
C 143.2
(3)
P 		73.5
(-3)
P 		97
(-1)
P 		93.1
(-1.3)
P 		70
avr 146.9
(3) 		83.3
(-2.8) 		80.6
(-3) 		102.1
(-1.1) 		66

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 173
1 2 3 4 5 6 range
A 54.7
(-3)
P 		132.9
(2)
P 		57
(-2.9)
P 		74.7
(-1.7)
P 		116.7
(1)
P 		148.1
(3)
P 		93
B 149.7
(-0.2)
P 		104.4
(-2.1)
P 		83.4
(-3)
P 		82.2
(-3)
P 		177.2
(0.9)
P 		227.6
(3)
P 		145
C 161.5
(1.8)
P 		111.4
(-0.6)
P 		85.1
(-1.9)
P 		62.7
(-3)
P 		110.9
(-0.6)
P 		185.2
(3)
P 		123
avr 122
(-0.4) 		116.2
(-0.7) 		75.2
(-2.9) 		73.2
(-3) 		134.9
(0.3) 		187
(3) 		114
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 181398_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10856
Sequence Type Exemplar sequence
Representative Public ID B0546.2 NCBI
Target Description B0546.2 /REP_DB=WormBase Gene ID /WP=CE19346 /TR=O44438 /GB=AAB92011.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=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_067932(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067932 NCBI Caenorhabditis elegans B0546.2 (B0546.2) mRNA, complete cds. 11/11 None
SNAP00000001409 ENSEMBL cdna:SNAP chromosome:CEL140:IV:3373641:3382831:-1 11/11 None
GENEFINDER00000001419 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:3374366:3377708:-1 9/11 None
B0546.2.1 ENSEMBL cdna:known chromosome:CEL140:IV:3373390:3378128:-1 gene:B0546.2 11/11 None
B0546.2.2 ENSEMBL cdna:known chromosome:CEL140:IV:3373407:3378126:-1 gene:B0546.2 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
chrIV:3373632-3378106(-) 99.62 100.0
Public Domain and Genome References
Gene Title
Ensembl B0546.2
Entrez Gene 177104 Entrez gene
SwissProt O44438 EMBL-EBI
WormBase CE30591 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB92011 Hypothetical protein B0546.2 [Caenorhabditis elegans] ref|NP_500333.2| B0546.2 [Caenorhabditis elegans] 0.0
blast AAB92011 Hypothetical protein B0546.2 [Caenorhabditis elegans] ref|NP_500333.2| B0546.2 [Caenorhabditis elegans] 1.0E-165
blast AAB92011 Hypothetical protein B0546.2 [Caenorhabditis elegans] ref|NP_500333.2| B0546.2 [Caenorhabditis elegans] 1.0E-138
blast AAB92013 Hypothetical protein B0546.3 [Caenorhabditis elegans] ref|NP_500334.1| B0546.3 [Caenorhabditis elegans] 1.0E-126
blast CAE73572 Hypothetical protein CBG21043 [Caenorhabditis briggsae] 1.0E-111
blast CAE73572 Hypothetical protein CBG21043 [Caenorhabditis briggsae] 1.0E-107
Protein Domains
Database ID Description E-Value
scop a.4.5.MarR-like transcriptional regulators All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; MarR-like transcriptional regulators 6.69999980926514
scop a.4.5.MarR-like transcriptional regulators All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; MarR-like transcriptional regulators 3.0
Pfam IPR003323 EMBL-EBI Ovarian tumour, otubain 2.4E-24
Pfam IPR003323 EMBL-EBI Ovarian tumour, otubain 9.2E-30
Pfam IPR004910 EMBL-EBI Yippee-like protein 1.5E-26
Pfam IPR003323 EMBL-EBI Ovarian tumour, otubain 9.2E-30
Sequence
Target Sequence 
>C. ELEGANS:181398_S_AT
cgtccggaaccagaagctactgctctaacagatggctccgcgtccacatcgaatgctgct
ccgccgccgtctacagtaccaattcaacagaatccaccgcttcggcttagttatcatcga
gctgttcactataatgctattcttgctccaaacattccaacaatcggaatcggtctcgga
ttacccggaatgataccaggatcagctgataaagagttaatgagcacagcaatgaagacc
tcggagttggagcatattgaagaaacgatgctccaggataaaatcgatatgacagatttt
caacgaactcaggcggatattgaagatcaaattactcgagaatccctaatttcatactta
aatgactttgaaaagtctaaaaatgctccgtcgacgtcagctggagctcctgggccatcc
aatttcagtggagagccgccggtatcaggctcaggactatacgaggaaatgctcgccgct
cagagcttggaatgggacgcctacaccgacgacgttgcaattgccgaagcgatgctcgtc
agccaacaggactatatgagcaataagccgagcacgagcagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGTCCGGAACCAGAAGCTACTGCTC 16 245 730 Antisense
GCTACTGCTCTAACAGATGGCTCCG 593 301 745 Antisense
ATCCACCGCTTCGGCTTAGTTATCA 245 39 821 Antisense
ATCGGTCTCGGATTACCCGGAATGA 308 35 898 Antisense
TACTCGAGAATCCCTAATTTCATAC 23 647 1062 Antisense
GCTCCGTCGACGTCAGCTGGAGCTC 190 299 1114 Antisense
TTCAGTGGAGAGCCGCCGGTATCAG 324 687 1153 Antisense
GCCGGTATCAGGCTCAGGACTATAC 438 281 1167 Antisense
ATACGAGGAAATGCTCGCCGCTCAG 385 23 1188 Antisense
TACACCGACGACGTTGCAATTGCCG 489 641 1231 Antisense
GAGCAATAAGCCGAGCACGAGCAGC 165 391 1287 Antisense
Sequence Source Affymetrix Proprietary Database