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[172490_at]

Description F39F10.4 /REP_DB=WormBase Gene ID /WP=CE07206 /TR=Q20194 /GB=AAB00615.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 48      4grp_total > 28      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4
1 2 3 4 range
A 4
(2.4)
A 		4.4
(3)
A 		0.7
(-3)
A 		3.4
(1.4)
A 		4
B 4
(3)
A 		2.3
(0.1)
A 		0.5
(-3)
A 		3
(1.3)
A 		4
C 1.9
(-3)
A 		2.4
(-2)
A 		2.8
(-1.2)
A 		4.9
(3)
A 		3
avr 3.3
(1.8) 		3
(1.1) 		1.3
(-3) 		3.8
(3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 29
1 2 3 4 5 6 range
A 26.2
(2.2)
A 		3.1
(-2.6)
A 		1.5
(-3)
A 		1.9
(-2.9)
A 		1.4
(-3)
A 		30.1
(3)
A 		29
B 17
(1.8)
A 		2.5
(-2.6)
A 		5.3
(-1.8)
A 		1.3
(-3)
A 		2.5
(-2.6)
A 		20.9
(3)
A 		20
C 24.7
(3)
A 		4
(-3)
A 		4.5
(-2.9)
A 		4.2
(-2.9)
A 		4
(-3)
A 		20.5
(1.8)
A 		21
avr 22.6
(2.7) 		3.2
(-2.8) 		3.8
(-2.6) 		2.5
(-3) 		2.6
(-3) 		23.8
(3) 		21
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1
1 2 3 4 range
A 1.4
(3)
A 		1
(1)
A 		0.2
(-3)
A 		0.5
(-1.5)
A 		1
B 1.3
(3)
A 		0.6
(-0.5)
A 		0.1
(-3)
A 		0.6
(-0.5)
A 		1
C 0.6
(-3)
A 		0.7
(-1.5)
A 		1
(3)
A 		0.8
(0)
A 		0
avr 1.1
(3) 		0.8
(0.4) 		0.4
(-3) 		0.6
(-1.3) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9
1 2 3 4 5 6 range
A 4.8
(0.9)
A 		1.1
(-2.3)
A 		0.3
(-3)
A 		0.5
(-2.8)
A 		0.4
(-2.9)
A 		7.3
(3)
A 		7
B 5.9
(1.5)
A 		0.8
(-2.7)
A 		1.3
(-2.3)
A 		0.4
(-3)
A 		1
(-2.5)
A 		7.8
(3)
A 		7
C 9.2
(3)
A 		1.2
(-2.7)
A 		1.1
(-2.8)
A 		0.8
(-3)
A 		1.3
(-2.6)
A 		6.9
(1.4)
A 		8
avr 6.6
(2.4) 		1
(-2.6) 		0.9
(-2.7) 		0.6
(-3) 		0.9
(-2.7) 		7.3
(3) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 172490_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17735
Sequence Type Exemplar sequence
Representative Public ID F39F10.4 NCBI
Target Description F39F10.4 /REP_DB=WormBase Gene ID /WP=CE07206 /TR=Q20194 /GB=AAB00615.1 /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_078331(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078331 NCBI Caenorhabditis elegans F39F10.4 (F39F10.4) mRNA, complete cds. 11/11 None
F39F10.4 ENSEMBL cdna:known chromosome:CEL140:X:16902304:16904245:-1 gene:F39F10.4 11/11 None
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
chrX:16902338-16902655(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F39F10.4
Entrez Gene 181738 Entrez gene
SwissProt Q20194 EMBL-EBI
WormBase CE07206 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB00615 Hypothetical protein F39F10.4 [Caenorhabditis elegans] ref|NP_510732.1| F39F10.4 [Caenorhabditis elegans] 2.0E-47
Sequence
Target Sequence 
>C. ELEGANS:172490_AT
gatctggagagctttcaagttttcttatgaacgcaatcaagttaagaaaacaaagaatgt
acttaaagaaattcatgtcaaaatggcagatcaaacaggagtatgcgtgaagaattttca
aacatacagtggcttcaactcctccgcggaaatgcctcggcaatatatagttaatgaagc
cgagaacagtaaaccattggtgccaaaaaattatatcgatttccgagttaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATCTGGAGAGCTTTCAAGTTTTCT 134 419 15 Antisense
GGAGAGCTTTCAAGTTTTCTTATGA 329 519 20 Antisense
GTTTTCTTATGAACGCAATCAAGTT 42 449 33 Antisense
GAAATTCATGTCAAAATGGCAGATC 343 363 82 Antisense
AAATGGCAGATCAAACAGGAGTATG 159 121 95 Antisense
ACAGGAGTATGCGTGAAGAATTTTC 553 105 109 Antisense
AAACATACAGTGGCTTCAACTCCTC 9 129 134 Antisense
CTCCGCGGAAATGCCTCGGCAATAT 154 233 156 Antisense
AATGCCTCGGCAATATATAGTTAAT 568 165 165 Antisense
CCGAGAACAGTAAACCATTGGTGCC 17 263 194 Antisense
AAATTATATCGATTTCCGAGTTAAT 155 115 222 Antisense
Sequence Source Affymetrix Proprietary Database