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[186601_at]

Description Y71F9B.12 /REP_DB=WormBase Gene ID /WP=CE25565 /TR=Q9N4G2 /GB=AAF36023.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 96      4grp_total > 23      6grp_cgc > 68      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 131
1 2 3 4 range
A 141.7
(3)
A 		134.6
(2.3)
A 		78.4
(-3)
A 		131.5
(2)
A 		63
B 183.8
(3)
A 		129.8
(-1.4)
A 		110.7
(-3)
A 		150.7
(0.3)
M 		73
C 153.3
(1.9)
P 		53
(-3)
A 		133.7
(1)
A 		175.2
(3)
P 		122
avr 159.6
(3) 		105.8
(-3) 		107.6
(-2.8) 		152.5
(2.2) 		54

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 189
1 2 3 4 5 6 range
A 99
(-3)
A 		175.1
(0.3)
A 		132.1
(-1.5)
A 		189.2
(1)
A 		230.6
(2.8)
P 		235.8
(3)
P 		137
B 71.8
(-2.6)
A 		92.2
(-1.9)
A 		58.4
(-3)
A 		157.4
(0.1)
A 		185.3
(1)
P 		247.1
(3)
P 		189
C 98.4
(-3)
A 		131.4
(-1.7)
A 		201.9
(1.2)
M 		159.2
(-0.5)
P 		198.8
(1.1)
P 		245.2
(3)
P 		147
avr 89.7
(-3) 		132.9
(-1.3) 		130.8
(-1.4) 		168.6
(0.1) 		204.9
(1.5) 		242.7
(3) 		153
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 43
1 2 3 4 range
A 51.6
(3)
A 		29.2
(-1.2)
A 		20.5
(-2.8)
A 		19.3
(-3)
A 		32
B 58.6
(3)
A 		32.1
(-1.8)
A 		25.7
(-3)
A 		32.1
(-1.8)
M 		33
C 50.8
(3)
P 		15.2
(-3)
A 		46.6
(2.3)
A 		29.5
(-0.6)
P 		36
avr 53.7
(3) 		25.5
(-3) 		30.9
(-1.9) 		27
(-2.7) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 78
1 2 3 4 5 6 range
A 18.3
(-3)
A 		62.3
(2.1)
A 		28.8
(-1.8)
A 		48
(0.5)
A 		69.6
(3)
P 		57.4
(1.6)
P 		51
B 25
(-2.2)
A 		30.7
(-1.7)
A 		14.2
(-3)
A 		41.7
(-0.9)
A 		75.3
(1.7)
P 		92.2
(3)
P 		78
C 36.5
(-2.5)
A 		40.1
(-2)
A 		51.4
(-0.7)
M 		32
(-3)
P 		64.3
(0.9)
P 		82.1
(3)
P 		50
avr 26.6
(-3) 		44.4
(-0.9) 		31.5
(-2.4) 		40.6
(-1.3) 		69.7
(2.1) 		77.2
(3) 		51
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186601_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.294
Sequence Type Exemplar sequence
Representative Public ID Y71F9B.12 NCBI
Target Description Y71F9B.12 /REP_DB=WormBase Gene ID /WP=CE25565 /TR=Q9N4G2 /GB=AAF36023.1 /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(10), NM_001026640(10)
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. 10/11 A 
NM_001026640 NCBI Caenorhabditis elegans Suppressor of Pal-1 family member (sop-3) (sop-3) mRNA, complete cds. 10/11 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 10/11 None
Y71F9B.10b ENSEMBL cdna:known chromosome:CEL140:I:2761187:2776083:-1 gene:Y71F9B.10 10/11 None
Y71F9B.10a.2 ENSEMBL cdna:known chromosome:CEL140:I:2761194:2776104:-1 gene:Y71F9B.10 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000013348 5/11 Cross Hyb Matching Probes None
GENEFINDER00000013334 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:2772654-2776083(-) 87.77 100.0
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
Sequence
Target Sequence 
>C. ELEGANS:186601_AT
tatttcggtcaaccgctcactgatgctccaggagctctagctctaatgaaaaatggagaa
ttctcgaagcttcgcgattcgataaccgcgattttgtcctcacttccgaaggaaattaca
ttaagcgagaaaaacgcgtgcaaagaagcttttcgagccctcgaccagttgctcattcga
gatgcagccgactcttcgtttactgcaattaacaccgggaaatatggattttatgctccg
cgtaatgagctacgttctggacggatttattatgttgcggagccagttttgattcggctc
gccgagaaggagggaaaaaccaaggccgatgcttcttgtgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TATTTCGGTCAACCGCTCACTGATG 272 661 394 Antisense
GATGCTCCAGGAGCTCTAGCTCTAA 471 413 415 Antisense
GAGAATTCTCGAAGCTTCGCGATTC 494 391 449 Antisense
TCGATAACCGCGATTTTGTCCTCAC 237 603 472 Antisense
GATTTTGTCCTCACTTCCGAAGGAA 57 429 483 Antisense
CCCTCGACCAGTTGCTCATTCGAGA 90 261 551 Antisense
TCATTCGAGATGCAGCCGACTCTTC 287 619 566 Antisense
ATGGATTTTATGCTCCGCGTAATGA 444 49 617 Antisense
AATGAGCTACGTTCTGGACGGATTT 60 163 637 Antisense
GAGCCAGTTTTGATTCGGCTCGCCG 171 381 673 Antisense
AACCAAGGCCGATGCTTCTTGTGAG 221 147 711 Antisense
Sequence Source Affymetrix Proprietary Database