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[186580_s_at]

Description Y71F9B.10 /REP_DB=WormBase Gene ID /WP=CE26246 /TR=Q9N4G4 /GB=AAF36027.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 4grp_high_8_8 > 18      6grp_total > 27      4grp_total > 30      6grp_cgc > 05      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 148
1 2 3 4 range
A 217.5
(3)
P 		185.2
(0)
P 		152.8
(-3)
P 		171.5
(-1.3)
P 		65
B 261.8
(2.5)
P 		180.8
(-0.7)
P 		125.3
(-3)
A 		273
(3)
P 		148
C 254.4
(3)
P 		161.1
(-1.6)
M 		131.8
(-3)
P 		240.3
(2.3)
P 		123
avr 244.6
(3) 		175.7
(-0.8) 		136.6
(-3) 		228.3
(2.1) 		108

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 141
1 2 3 4 5 6 range
A 197.5
(3)
P 		189.4
(2.6)
P 		141.4
(-0.1)
P 		87.3
(-3)
A 		186.1
(2.4)
A 		156
(0.7)
P 		110
B 228.5
(3)
P 		225.8
(2.8)
P 		164.3
(-1)
M 		132.1
(-3)
P 		154.8
(-1.6)
A 		169.2
(-0.7)
P 		96
C 144.2
(1.1)
P 		158.3
(3)
P 		140.8
(0.6)
P 		114
(-3)
A 		127.8
(-1.1)
A 		148.6
(1.7)
P 		44
avr 190.1
(2.9) 		191.2
(3) 		148.8
(-0.2) 		111.1
(-3) 		156.2
(0.4) 		157.9
(0.5) 		80
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 79.2
(3)
P 		40.2
(-1.3)
P 		39.9
(-1.4)
P 		25.1
(-3)
P 		54
B 83.5
(3)
P 		44.7
(-1.3)
P 		29
(-3)
A 		58.2
(0.2)
P 		55
C 84.2
(3)
P 		46.3
(-2.2)
M 		45.9
(-2.3)
P 		40.5
(-3)
P 		44
avr 82.3
(3) 		43.7
(-2.3) 		38.3
(-3) 		41.3
(-2.6) 		44

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 57
1 2 3 4 5 6 range
A 36.4
(-1.1)
P 		67.4
(3)
P 		30.8
(-1.8)
P 		22.1
(-3)
A 		56.2
(1.5)
A 		38
(-0.9)
P 		45
B 79.5
(3)
P 		75.2
(2.4)
P 		39.9
(-2.3)
M 		35
(-3)
P 		62.9
(0.8)
A 		63.1
(0.8)
P 		45
C 53.5
(3)
P 		48.3
(2)
P 		35.8
(-0.5)
P 		22.9
(-3)
A 		41.3
(0.6)
A 		49.8
(2.3)
P 		31
avr 56.5
(1.8) 		63.6
(3) 		35.5
(-1.6) 		26.7
(-3) 		53.5
(1.4) 		50.3
(0.8) 		37
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 186580_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.179
Sequence Type Exemplar sequence
Representative Public ID Y71F9B.10 NCBI
Target Description Y71F9B.10 /REP_DB=WormBase Gene ID /WP=CE26246 /TR=Q9N4G4 /GB=AAF36027.1 /SUBMIT=ST.LOUIS /CHR=1 /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_170837(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_170837 NCBI Caenorhabditis elegans Suppressor of Pal-1 family member (sop-3) (sop-3) mRNA, complete cds. 11/11 A 
GENEFINDER00000013348 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:2759075:2773645:-1 11/11 None
SNAP00000013312 ENSEMBL cdna:SNAP chromosome:CEL140:I:2761319:2778025:-1 11/11 None
Y71F9B.10a.1 ENSEMBL cdna:known chromosome:CEL140:I:2761173:2776098:-1 gene:Y71F9B.10 11/11 None
Y71F9B.10a.2 ENSEMBL cdna:known chromosome:CEL140:I:2761194:2776104:-1 gene:Y71F9B.10 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
171840 2 1 NM_170837 186580_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:2761318-2771045(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y71F9B.10
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF36027 Suppressor of pal-1 protein 3, isoform a [Caenorhabditis elegans] ref|NP_740821.1| Suppressor of Pal-1 family member (sop-3) [Caenorhabditis elegans] gb|AAG45416.1| SOP-3 [Caenorhabditis elegans] 0.0
blast AAL27266 Suppressor of pal-1 protein 3, isoform b [Caenorhabditis elegans] ref|NP_001021811.1| Suppressor of Pal-1 family member (sop-3) [Caenorhabditis elegans] 0.0
blast CAE60503 Hypothetical protein CBG04122 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006108 EMBL-EBI 3-hydroxyacyl-CoA dehydrogenase, C-terminal 5.3E-22
Pfam IPR006176 EMBL-EBI 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain 8.0E-38
Sequence
Target Sequence 
>C. ELEGANS:186580_S_AT
agcagcagcatcatcgagagccgcttttgaagaagaagccaccactacaaccaccaccgc
caccacagatgactggacctccgatcgggatatatccaggaccgccggctcccggtaatc
tgccgggtagtagcaggccgagtgggaatcggaagcaacctcttccgccaccacctccga
tgattagaggtccaccaccggatcaaatgtaccgtgatcgatcgggaggcggcggcggca
gtatgcgtggcggcttcccaccagcgtctcactatcacggaggaacgagtggagtcaaca
aacaagtggcctcttatgcacagggccttccgcctggtatgggaccgcccgtggtcaagc
ctcacggaaacaactatcaagcgtcgcaatgggtcaggccgcccacgcacagggactcct
cgcacagctatcacggaatgccgtctcttggaccaccacagctccagcgagagccgccgg
cgccgccaccgccgcaaatgatcccactgccaaaggatccaccggtgctccgtgagcatc
cgcgggaacaccgagcacaccgcggcggagcagatgacgatggtcccgacagtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCAGCAGCATCATCGAGAGCCGCT 634 77 2768 Antisense
ATGACTGGACCTCCGATCGGGATAT 500 43 2836 Antisense
CGGCTCCCGGTAATCTGCCGGGTAG 377 241 2873 Antisense
GGTCCACCACCGGATCAAATGTACC 474 501 2956 Antisense
GTACCGTGATCGATCGGGAGGCGGC 75 457 2976 Antisense
CAGCGTCTCACTATCACGGAGGAAC 631 203 3029 Antisense
AGTGGCCTCTTATGCACAGGGCCTT 144 59 3072 Antisense
TCAAGCGTCGCAATGGGTCAGGCCG 566 629 3144 Antisense
GATCCCACTGCCAAAGGATCCACCG 423 417 3267 Antisense
CACACCGCGGCGGAGCAGATGACGA 513 193 3323 Antisense
GCAGATGACGATGGTCCCGACAGTC 88 311 3337 Antisense
Sequence Source Affymetrix Proprietary Database