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[173542_at]

Description C66886 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F47D12.9 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C66886 /WB_GENE_ID=F47D12.9 /WP=CE24988 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk234b5 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 89      6grp_high1_10_10 > 99      4grp_highest_8_8 > 36      4grp_high_8_8 > 0      6grp_highest_nonorm > 68      6grp_total > 89      4grp_total > 07      6grp_highest_sub > In      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1522
1 2 3 4 range
A 2697
(3)
P 		1175.1
(-3)
P 		2072
(0.5)
P 		1519.5
(-1.6)
P 		1522
B 1829.8
(-1.8)
P 		2166.4
(1)
P 		1692.8
(-3)
P 		2406.7
(3)
P 		714
C 2077.9
(0.9)
P 		1177.7
(-3)
P 		1951.9
(0.4)
P 		2547.5
(3)
P 		1370
avr 2201.6
(3) 		1506.4
(-3) 		1905.6
(0.4) 		2157.9
(2.6) 		695

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2449
1 2 3 4 5 6 range
A 1783.6
(-3)
P 		2141
(-1.4)
P 		1803.5
(-2.9)
P 		2186.2
(-1.2)
P 		2885.9
(1.8)
P 		3156.9
(3)
P 		1373
B 1933.8
(0.9)
P 		1941.3
(1)
P 		708.3
(-3)
P 		2210.6
(1.8)
P 		2442.8
(2.6)
P 		2572.2
(3)
P 		1864
C 1902.8
(-1.2)
P 		2196.5
(0.6)
P 		2587.3
(3)
P 		1608.7
(-3)
P 		2063.8
(-0.2)
P 		2138
(0.2)
P 		979
avr 1873.4
(-1.9) 		2092.9
(-0.4) 		1699.7
(-3) 		2001.8
(-1) 		2464.2
(2) 		2622.4
(3) 		923
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 760
1 2 3 4 range
A 982
(3)
P 		255.1
(-2.7)
P 		541.7
(-0.5)
P 		222.4
(-3)
P 		760
B 583.5
(3)
P 		535.1
(1.5)
P 		392.3
(-3)
P 		512.9
(0.8)
P 		191
C 687.9
(3)
P 		338.6
(-3)
P 		680.3
(2.9)
P 		429.6
(-1.4)
P 		349
avr 751.1
(3) 		376.3
(-3) 		538.1
(-0.4) 		388.3
(-2.8) 		375

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 821
1 2 3 4 5 6 range
A 328.8
(-3)
P 		761.5
(1.8)
P 		392.8
(-2.3)
P 		554.5
(-0.5)
P 		870.8
(3)
P 		768.6
(1.9)
P 		542
B 672.9
(0.7)
P 		646.2
(0.5)
P 		172
(-3)
P 		585.5
(0)
P 		992.5
(3)
P 		959.1
(2.8)
P 		821
C 705.3
(2.8)
P 		670.2
(2.3)
P 		658.5
(2.1)
P 		323.5
(-3)
P 		667.8
(2.3)
P 		715.7
(3)
P 		392
avr 569
(-0.8) 		692.6
(0.9) 		407.8
(-3) 		487.8
(-1.9) 		843.7
(3) 		814.5
(2.6) 		436
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173542_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23949
Sequence Type Exemplar sequence
Representative Public ID C66886 NCBI
Target Description C66886 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F47D12.9 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C66886 /WB_GENE_ID=F47D12.9 /WP=CE24988 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk234b5 : 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_181945(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_181945 NCBI Caenorhabditis elegans F47D12.9b (F47D12.9) mRNA, complete cds. 11/11 None
F47D12.9b.2 ENSEMBL cdna:known chromosome:CEL140:III:6299282:6301491:-1 gene:F47D12.9 11/11 A 
F47D12.9b.1 ENSEMBL cdna:known chromosome:CEL140:III:6299282:6302448:-1 gene:F47D12.9 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
F47D12.9b.3 5/11 Cross Hyb Matching Probes A 
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175892 2 1 NM_181945 173542_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:6299339-6303148(-) 97.18 100.0
Public Domain and Genome References
Ensembl F47D12.9
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAN63388 Hypothetical protein F47D12.9b [Caenorhabditis elegans] ref|NP_871674.1| F47D12.9b [Caenorhabditis elegans] 0.0
blast AAK20070 Hypothetical protein F47D12.9a [Caenorhabditis elegans] ref|NP_498382.2| F47D12.9a [Caenorhabditis elegans] sp|Q09392|YR49_CAEEL Hypothetical WD-repeat protein F47D12.9 in chromosome III 0.0
blast CAE70717 Hypothetical protein CBG17459 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.23
Pfam IPR001680 EMBL-EBI G-protein beta WD-40 repeat 0.011
Sequence
Target Sequence 
>C. ELEGANS:173542_AT
gagctctaaccatcatcatcaagttcaacttaatcttgttagaatcagtcagtatttacc
cttctctttaatttcagaattcagtgaacaaattgtaaaaatgtagtcaactcatcatgt
aactatcttttttattttctccctttctctatctctcttgtctctctctccccgtttgtc
tcgttgccggtcaaaactttaaaaaatgaactcaaaaaaaaagaaagaaagaaggtgata
gtatgaatgcctgtcccggtctcgatatgccattttaaaccgtttttctctttaagtttc
ttctcattatcatataattttctcatttttaactcattccgcta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGCTCTAACCATCATCATCAAGTT 22 389 1739 Antisense
GAATCAGTCAGTATTTACCCTTCTC 169 327 1780 Antisense
TATTTACCCTTCTCTTTAATTTCAG 174 663 1791 Antisense
AATGTAGTCAACTCATCATGTAACT 92 165 1838 Antisense
CATGTAACTATCTTTTTTATTTTCT 320 209 1854 Antisense
TTGTCTCGTTGCCGGTCAAAACTTT 234 687 1914 Antisense
GATAGTATGAATGCCTGTCCCGGTC 269 423 1975 Antisense
TCCCGGTCTCGATATGCCATTTTAA 2 599 1992 Antisense
TTTTTCTCTTTAAGTTTCTTCTCAT 411 675 2021 Antisense
AAGTTTCTTCTCATTATCATATAAT 308 157 2032 Antisense
TTCTCATTTTTAACTCATTCCGCTA 280 691 2058 Antisense
Sequence Source Affymetrix Proprietary Database