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[172300_x_at]

Description F39B3.3 /REP_DB=WormBase Gene ID /WP=CE10090 /TR=Q94221 /GB=AAB07576.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 0      4grp_total > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 198
1 2 3 4 range
A 33.2
(-2.5)
A 		18.8
(-2.9)
A 		16.2
(-3)
A 		213.3
(3)
A 		197
B 39.2
(-1.9)
A 		49.3
(-0.8)
A 		28.5
(-3)
A 		86
(3)
A 		58
C 50.1
(-1.3)
A 		15.3
(-3)
A 		35.9
(-2)
A 		137.9
(3)
A 		123
avr 40.8
(-2.3) 		27.8
(-3) 		26.9
(-3) 		145.7
(3) 		119

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 87
1 2 3 4 5 6 range
A 63.8
(3)
A 		53.4
(1.9)
A 		28.3
(-0.8)
A 		14.8
(-2.2)
A 		7
(-3)
A 		49
(1.4)
A 		57
B 10.9
(-2.5)
A 		62.3
(1.7)
A 		13.7
(-2.3)
A 		77.6
(3)
A 		5.3
(-3)
A 		34.3
(-0.6)
A 		72
C 13.9
(-2.6)
A 		92.4
(3)
A 		36.9
(-0.9)
A 		7.8
(-3)
A 		19.3
(-2.2)
A 		14.5
(-2.5)
A 		85
avr 29.5
(-1.1) 		69.4
(3) 		26.3
(-1.4) 		33.4
(-0.7) 		10.5
(-3) 		32.6
(-0.7) 		59
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 12.1
(-1.2)
A 		4.1
(-3)
A 		4.2
(-3)
A 		31.2
(3)
A 		27
B 12.5
(0)
A 		12.2
(-0.1)
A 		6.6
(-3)
A 		18.3
(3)
A 		12
C 16.6
(0.9)
A 		4.4
(-3)
A 		12.5
(-0.4)
A 		23.3
(3)
A 		19
avr 13.7
(-0.7) 		6.9
(-3) 		7.8
(-2.7) 		24.3
(3) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 11.8
(0.4)
A 		19
(3)
A 		6.2
(-1.5)
A 		3.8
(-2.4)
A 		2.1
(-3)
A 		11.9
(0.5)
A 		17
B 3.8
(-2.5)
A 		20.7
(3)
A 		3.3
(-2.6)
A 		20.6
(3)
A 		2.2
(-3)
A 		12.8
(0.4)
A 		19
C 5.2
(-2.2)
A 		28.2
(3)
A 		9.4
(-1.2)
A 		1.6
(-3)
A 		6.2
(-2)
A 		4.9
(-2.3)
A 		27
avr 6.9
(-1.9) 		22.6
(3) 		6.3
(-2.1) 		8.7
(-1.4) 		3.5
(-3) 		9.9
(-1) 		19
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172300_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17329
Sequence Type Exemplar sequence
Representative Public ID F39B3.3 NCBI
Target Description F39B3.3 /REP_DB=WormBase Gene ID /WP=CE10090 /TR=Q94221 /GB=AAB07576.1 /SUBMIT=ST.LOUIS /CHR=X /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_078442(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078442 NCBI Caenorhabditis elegans F39B3.3 (F39B3.3) mRNA, complete cds. 11/11 None
SNAP00000016726 ENSEMBL cdna:SNAP chromosome:CEL140:X:17577668:17579021:-1 11/11 None
GENEFINDER00000016739 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:17578602:17579021:-1 11/11 None
F39B3.3 ENSEMBL cdna:known chromosome:CEL140:X:17578602:17579021:-1 gene:F39B3.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_077928 5/11 Cross Hyb Matching Probes A 
NM_060902 1/11 Cross Hyb Matching Probes A 
NM_058839 7/11 Cross Hyb Matching Probes A 
NM_063156 5/11 Cross Hyb Matching Probes A 
SNAP00000002512 1/11 Cross Hyb Matching Probes None
GENEFINDER00000002519 1/11 Cross Hyb Matching Probes None
SNAP00000013113 7/11 Cross Hyb Matching Probes None
GENEFINDER00000013124 7/11 Cross Hyb Matching Probes None
SNAP00000027025 5/11 Cross Hyb Matching Probes None
GENEFINDER00000027034 5/11 Cross Hyb Matching Probes None
T03F1.4 7/11 Cross Hyb Matching Probes A 
F22G12.2 1/11 Cross Hyb Matching Probes A 
K02A2.6 5/11 Cross Hyb Matching Probes A 
C31E10.2 5/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Public Domain and Genome References
Gene Title
Ensembl F39B3.3
Entrez Gene 185490 Entrez gene
SwissProt Q94221 EMBL-EBI
WormBase CE10090 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB07576 Hypothetical protein F39B3.3 [Caenorhabditis elegans] ref|NP_510843.1| F39B3.3 [Caenorhabditis elegans] 5.0E-59
blast AAB07576 Hypothetical protein F39B3.3 [Caenorhabditis elegans] ref|NP_510843.1| F39B3.3 [Caenorhabditis elegans] 8.0E-59
blast AAC46707 Hypothetical protein K02A2.6 [Caenorhabditis elegans] ref|NP_495557.1| K02A2.6 [Caenorhabditis elegans] sp|Q09575|YRD6_CAEEL Hypothetical protein K02A2.6 in chromosome II 7.0E-53
blast AAC46707 Hypothetical protein K02A2.6 [Caenorhabditis elegans] ref|NP_495557.1| K02A2.6 [Caenorhabditis elegans] sp|Q09575|YRD6_CAEEL Hypothetical protein K02A2.6 in chromosome II 1.0E-52
blast CAB07366 Hypothetical protein F22G12.2 [Caenorhabditis elegans] ref|NP_493303.1| F22G12.2 [Caenorhabditis elegans] 1.0E-47
Sequence
Target Sequence 
>C. ELEGANS:172300_X_AT
atgtcccgcaatgatgatccagttgttacttcgaatggttccagtactgatgtcaatcgt
ggaagccgaatcacaagtgaactaaagatgaaagaaagcaatgcagtcagaggacagcca
cgtggatcctgttctccaaccaacaacgacgtttcggcgcccggatacgcctcacgttct
cacccgaccaccgacccaagccattccgtaagacgaagttcgcgaattcgacgagtaccg
gacagatatggttcatctgtggagcacctttcaacctccaccggaactccgcgaggatcg
acatccacacagctcggtcaagcctccactcgcaacggaaatcgatatacagcttctggt
cgaaacccctcttgccaagggaatcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGTCCCGCAATGATGATCCAGTTG 94 49 13 Antisense
CAGTTGTTACTTCGAATGGTTCCAG 44 207 32 Antisense
CAGTCAGAGGACAGCCACGTGGATC 479 205 116 Antisense
TCTCCAACCAACAACGACGTTTCGG 524 605 145 Antisense
ACCCAAGCCATTCCGTAAGACGAAG 671 83 206 Antisense
GTTCGCGAATTCGACGAGTACCGGA 557 441 230 Antisense
TCATCTGTGGAGCACCTTTCAACCT 599 619 265 Antisense
CGAGGATCGACATCCACACAGCTCG 73 251 304 Antisense
CCTCCACTCGCAACGGAAATCGATA 330 267 335 Antisense
TATACAGCTTCTGGTCGAAACCCCT 334 659 358 Antisense
GAAACCCCTCTTGCCAAGGGAATCG 258 355 374 Antisense
Sequence Source Affymetrix Proprietary Database