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[175536_s_at]

Description AU113386_rc /REP_DB=TREMBL Accession /GB=AU113386 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk706h11 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 67      6grp_high1_10_10 > 76      4grp_highest_8_8 > 52      4grp_high_8_8 > 17      6grp_highest_nonorm > 82      6grp_total > 66      4grp_total > 31      6grp_highest_sub > In      6grp_cgc > 47      6grp_high1_sub > Da      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 281
1 2 3 4 range
A 264
(3)
P 		184.7
(-1.8)
P 		164.9
(-3)
P 		169.6
(-2.7)
P 		99
B 291.3
(2.6)
P 		253.5
(0.7)
P 		180.4
(-3)
P 		298.2
(3)
P 		118
C 445.5
(3)
P 		194.1
(-3)
P 		244.4
(-1.8)
P 		322.2
(0.1)
P 		251
avr 333.6
(3) 		210.8
(-2.4) 		196.6
(-3) 		263.3
(-0.1) 		137

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 500
1 2 3 4 5 6 range
A 228.8
(-3)
P 		311.8
(-0.6)
P 		437.2
(3)
P 		301.7
(-0.9)
P 		339.9
(0.2)
P 		282.2
(-1.5)
P 		208
B 444.9
(-0.6)
P 		277.6
(-2.9)
P 		486.5
(-0)
P 		272
(-3)
P 		351.7
(-1.9)
P 		707.9
(3)
P 		436
C 231.6
(-2.5)
P 		339.5
(0)
P 		208.2
(-3)
P 		321.2
(-0.4)
P 		320.3
(-0.4)
P 		468.3
(3)
P 		260
avr 301.8
(-2.9) 		309.6
(-2.6) 		377.3
(-0.5) 		298.3
(-3) 		337.3
(-1.8) 		486.1
(3) 		188
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 123
1 2 3 4 range
A 96.1
(3)
P 		40.1
(-1.7)
P 		43.1
(-1.5)
P 		24.8
(-3)
P 		71
B 92.9
(3)
P 		62.6
(-0.6)
P 		41.8
(-3)
P 		63.5
(-0.5)
P 		51
C 147.5
(3)
P 		55.8
(-2.9)
P 		85.2
(-1)
P 		54.3
(-3)
P 		93
avr 112.2
(3) 		52.8
(-2.5) 		56.7
(-2.1) 		47.5
(-3) 		65

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 222
1 2 3 4 5 6 range
A 42.2
(-3)
P 		110.9
(3)
P 		95.2
(1.6)
P 		76.5
(-0)
P 		102.6
(2.3)
P 		68.7
(-0.7)
P 		69
B 154.8
(-0.4)
P 		92.4
(-2.4)
P 		118.1
(-1.6)
P 		72
(-3)
P 		142.9
(-0.8)
P 		264
(3)
P 		192
C 85.8
(-1.1)
P 		103.6
(-0.1)
P 		53
(-3)
P 		64.6
(-2.3)
P 		103.7
(-0.1)
P 		156.8
(3)
P 		104
avr 94.3
(-1.5) 		102.3
(-1) 		88.8
(-1.8) 		71
(-3) 		116.4
(-0) 		163.2
(3) 		92
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175536_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20335
Sequence Type Exemplar sequence
Representative Public ID AU113386 NCBI
Target Description AU113386_rc /REP_DB=TREMBL Accession /GB=AU113386 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk706h11 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_001026227(11), NM_001026228(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026227 NCBI Caenorhabditis elegans RNAi DEfective family member (rde-2) (rde-2) mRNA, complete cds. 11/11 None
NM_001026228 NCBI Caenorhabditis elegans RNAi DEfective family member (rde-2) (rde-2) mRNA, complete cds. 11/11 None
SNAP00000007023 ENSEMBL cdna:SNAP chromosome:CEL140:I:7287932:7291002:-1 11/11 None
GENEFINDER00000007031 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:7288728:7291002:-1 11/11 None
F21C3.4 ENSEMBL cdna:known chromosome:CEL140:I:7288683:7291002:-1 gene:F21C3.4 11/11 A 
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:7288660-7289015(-) 100.0 100.0
Public Domain and Genome References
Ensembl F21C3.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA95803 Hypothetical protein F21C3.4a [Caenorhabditis elegans] ref|NP_001021398.1| RNAi DEfective family member (rde-2) [Caenorhabditis elegans] 0.0
blast CAI70415 Hypothetical protein F21C3.4b [Caenorhabditis elegans] ref|NP_001021399.1| RNAi DEfective family member (rde-2) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001310 EMBL-EBI Histidine triad (HIT) protein 6.5E-61
Sequence
Target Sequence 
>C. ELEGANS:175536_S_AT
ggagtacttgtcacaattccaaaagaacgtcttctgaatcatttgaattcgaaattatca
gcagattttgacctaatcgcgtgggttgttcatcgaaaaccaattggaaatgtttcatta
catattggaaagggaggtgaagcttatcaacagttcacaaatggagatattcgagagctt
ccgccattgtcttctaatcaatatttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGTACTTGTCACAATTCCAAAAG 666 517 14 Antisense
AACGTCTTCTGAATCATTTGAATTC 649 143 39 Antisense
ATCAGCAGATTTTGACCTAATCGCG 424 27 70 Antisense
GACCTAATCGCGTGGGTTGTTCATC 560 381 83 Antisense
GCGTGGGTTGTTCATCGAAAACCAA 186 293 92 Antisense
GGAAATGTTTCATTACATATTGGAA 382 527 119 Antisense
GGGAGGTGAAGCTTATCAACAGTTC 20 497 145 Antisense
GAAGCTTATCAACAGTTCACAAATG 149 343 152 Antisense
GGAGATATTCGAGAGCTTCCGCCAT 190 519 176 Antisense
CTTCCGCCATTGTCTTCTAATCAAT 41 221 191 Antisense
GCCATTGTCTTCTAATCAATATTTC 342 281 196 Antisense
Sequence Source Affymetrix Proprietary Database