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[173490_s_at]

Description C40688 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F09F7.7 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C40688 /WB_GENE_ID=F09F7.7 /WP=CE01239 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk247d2 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 39      6grp_high1_10_10 > 93      4grp_highest_8_8 > 30      4grp_high_8_8 > 05      6grp_highest_nonorm > 48      6grp_total > 80      4grp_total > 03      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 19328
1 2 3 4 range
A 3404.2
(-2.2)
P 		1006.9
(-3)
P 		922.1
(-3)
P 		20139.5
(3)
P 		19217
B 4008.8
(-1.7)
P 		811.7
(-3)
P 		874.5
(-3)
P 		15169.1
(3)
P 		14357
C 3015.4
(-2.2)
P 		850.1
(-3)
P 		876.7
(-3)
P 		17767.7
(3)
P 		16918
avr 3476.1
(-2.1) 		889.6
(-3) 		891.1
(-3) 		17692.1
(3) 		16803

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3800
1 2 3 4 5 6 range
A 3992.3
(0.3)
P 		2838.9
(-3)
P 		3604
(-0.8)
P 		4922.2
(3)
P 		4801.4
(2.7)
P 		3698.7
(-0.5)
P 		2083
B 3769.6
(-1)
P 		4167
(-0.1)
P 		2849.7
(-3)
P 		5576.5
(3)
P 		5200.2
(2.2)
P 		4694.9
(1.1)
P 		2727
C 2608.5
(-3)
P 		3468.6
(-1.6)
P 		3414.8
(-1.7)
P 		6408.1
(3)
P 		3511.5
(-1.6)
P 		4323.9
(-0.3)
P 		3800
avr 3456.8
(-2.6) 		3491.5
(-2.5) 		3289.5
(-3) 		5635.6
(3) 		4504.4
(0.1) 		4239.2
(-0.6) 		2346
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3032
1 2 3 4 range
A 1239.5
(-0.8)
P 		218.6
(-3)
P 		241
(-3)
P 		2948
(3)
P 		2729
B 1278.4
(-0.9)
P 		200.5
(-3)
P 		202.6
(-3)
P 		3232.5
(3)
P 		3032
C 998.2
(-1.4)
P 		244.4
(-3)
P 		305.5
(-2.9)
P 		2995.9
(3)
P 		2752
avr 1172
(-1) 		221.2
(-3) 		249.7
(-2.9) 		3058.8
(3) 		2838

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1421
1 2 3 4 5 6 range
A 735.9
(-3)
P 		1009.7
(-0.7)
P 		784.9
(-2.6)
P 		1248.4
(1.3)
P 		1448.9
(3)
P 		900.5
(-1.6)
P 		713
B 1311.6
(-0.4)
P 		1387
(-0.1)
P 		692
(-3)
P 		1477
(0.3)
P 		2112.8
(3)
P 		1750.7
(1.5)
P 		1421
C 966.9
(-2)
P 		1058.4
(-1)
P 		869.1
(-3)
P 		1288.7
(1.4)
P 		1136.3
(-0.2)
P 		1447.4
(3)
P 		578
avr 1004.8
(-1.3) 		1151.7
(-0.2) 		782
(-3) 		1338
(1.3) 		1566
(3) 		1366.2
(1.5) 		784
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173490_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24192
Sequence Type Exemplar sequence
Representative Public ID C40688 NCBI
Target Description C40688 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F09F7.7 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C40688 /WB_GENE_ID=F09F7.7 /WP=CE01239 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk247d2 : 5prime 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_171124(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171124 NCBI Caenorhabditis elegans F09F7.7a (F09F7.7) mRNA, complete cds. 10/11 None
SNAP00000025397 ENSEMBL cdna:SNAP chromosome:CEL140:III:5553523:5554915:-1 10/11 None
GENEFINDER00000025411 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:5553523:5554870:-1 10/11 None
F09F7.7a ENSEMBL cdna:known chromosome:CEL140:III:5553466:5554870:-1 gene:F09F7.7 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_171125 1/11 Cross Hyb Matching Probes None
F09F7.7b 1/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175765 2 1 NM_171124 173490_s_at (10)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:5553512-5554870(-) 100.0 100.0
Public Domain and Genome References
Ensembl F09F7.7
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_741141 F09F7.7a [Caenorhabditis elegans] gb|AAM22063.1| Hypothetical protein F09F7.7a [Caenorhabditis elegans] 1.0E-169
blast T16009 hypothetical protein F09F7.7 - Caenorhabditis elegans 1.0E-163
blast CAE56368 Hypothetical protein CBG24043 [Caenorhabditis briggsae] 1.0E-147
Sequence
Target Sequence 
>C. ELEGANS:173490_S_AT
gccagagtacgcagacatgttgctcaataagatgagtgaatacgacgtgaagaaactcgg
aaattatcagccattcgaaatgtgcaatttggagtatgaggaagtgaagaaaagtgccat
tgagatgcatcaggatgatatgtggatttggggaaatcgattgataagatctgaaaactt
cagagtatttgatttttctcaaaaactgtgttcaaaaaaatgccttgcctcgagaataat
aaatttaaatacgaactttgaagaatccaatcaatttttcagcatcaacctaatcaatgg
atccgtgatgactctatccaacgataataaatcgttcttatgctacgtccatatgcctca
tcgttctcttctctgtatggccgatgaatgtagatatgattggaagcacggagttctcgc
tcaccacatccgtggacgaagaatagcgttgacgatgcgagaggcggccaaagatttcgc
tgagggaggggaattgtatgagaaatacggtgccgagctaattcgcctgggcaacattcg
agtacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCAGAGTACGCAGACATGTTGCTC 166 279 436 Antisense
AAAATGCCTTGCCTCGAGAATAATA 202 133 652 Antisense
GATCCGTGATGACTCTATCCAACGA 182 417 735 Antisense
TCTTATGCTACGTCCATATGCCTCA 563 615 771 Antisense
TTCTCTTCTCTGTATGGCCGATGAA 131 693 799 Antisense
TTGGAAGCACGGAGTTCTCGCTCAC 83 709 835 Antisense
CGCTCACCACATCCGTGGACGAAGA 543 255 853 Antisense
AGCGTTGACGATGCGAGAGGCGGCC 93 81 880 Antisense
GAGGCGGCCAAAGATTTCGCTGAGG 574 405 896 Antisense
AATACGGTGCCGAGCTAATTCGCCT 546 169 939 Antisense
TTCGCCTGGGCAACATTCGAGTACC 580 691 957 Antisense
Sequence Source Affymetrix Proprietary Database