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[180806_at]

Description F56C3.8 /REP_DB=WormBase Gene ID /WP=CE17899 /TR=O61759 /GB=AAC17008.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 65      4grp_total > 33      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 81
1 2 3 4 range
A 21.8
(-3)
A 		50.1
(-0.3)
A 		45.9
(-0.7)
A 		84.1
(3)
A 		62
B 11.2
(-3)
A 		32.3
(-0.7)
A 		65.9
(3)
A 		24.8
(-1.5)
A 		55
C 3.5
(-3)
A 		48.5
(3)
A 		40
(1.9)
A 		30.4
(0.6)
A 		45
avr 12.2
(-3) 		43.6
(1.9) 		50.6
(3) 		46.4
(2.3) 		38

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 56
1 2 3 4 5 6 range
A 26.1
(-0.2)
A 		33.6
(0.8)
A 		49.1
(2.8)
A 		50.7
(3)
A 		4.8
(-3)
A 		47.2
(2.5)
A 		46
B 14
(-2.1)
A 		24.7
(-0.8)
A 		6.9
(-3)
A 		56.1
(3)
A 		41.6
(1.2)
A 		31.8
(0)
A 		49
C 34
(-1.1)
A 		60.9
(3)
A 		56.2
(2.3)
A 		31.5
(-1.5)
A 		21.6
(-3)
A 		54.5
(2)
P 		39
avr 24.7
(-2.5) 		39.7
(1.4) 		37.4
(0.8) 		46.1
(3) 		22.7
(-3) 		44.5
(2.6) 		23
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14
1 2 3 4 range
A 7.9
(-3)
A 		10.9
(1.1)
A 		12
(2.6)
A 		12.3
(3)
A 		4
B 3.6
(-3)
A 		8
(-0.7)
A 		15.3
(3)
A 		5.3
(-2.1)
A 		12
C 1.2
(-3)
A 		13.9
(3)
A 		13.9
(3)
A 		5.1
(-1.2)
A 		13
avr 4.2
(-3) 		10.9
(1.2) 		13.7
(3) 		7.6
(-0.9) 		10

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 17
1 2 3 4 5 6 range
A 4.8
(-1.3)
A 		12
(2.5)
A 		10.7
(1.8)
A 		12.9
(3)
A 		1.5
(-3)
A 		11.5
(2.3)
A 		11
B 4.9
(-1.7)
A 		8.2
(-0.4)
A 		1.7
(-3)
A 		14.8
(2.2)
A 		16.9
(3)
A 		11.8
(1)
A 		15
C 12.6
(0.1)
A 		18.6
(3)
A 		14.3
(0.9)
A 		6.3
(-3)
A 		7
(-2.7)
A 		18.2
(2.8)
P 		12
avr 7.4
(-3) 		12.9
(2.2) 		8.9
(-1.6) 		11.3
(0.7) 		8.5
(-2) 		13.8
(3) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180806_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18611
Sequence Type Exemplar sequence
Representative Public ID F56C3.8 NCBI
Target Description F56C3.8 /REP_DB=WormBase Gene ID /WP=CE17899 /TR=O61759 /GB=AAC17008.1 /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_075855(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075855 NCBI Caenorhabditis elegans F56C3.8 (F56C3.8) mRNA, complete cds. 11/11 None
SNAP00000017308 ENSEMBL cdna:SNAP chromosome:CEL140:X:1384356:1384633:-1 11/11 None
GENEFINDER00000017312 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:1384356:1384606:-1 10/11 None
F56C3.8 ENSEMBL cdna:known chromosome:CEL140:X:1384317:1384633:-1 gene:F56C3.8 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:1384355-1384633(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F56C3.8
Entrez Gene 180477 Entrez gene
SwissProt O61759 EMBL-EBI
WormBase CE17899 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC17008 Hypothetical protein F56C3.8 [Caenorhabditis elegans] ref|NP_508256.1| F56C3.8 [Caenorhabditis elegans] 3.0E-18
blast AAC17008 Hypothetical protein F56C3.8 [Caenorhabditis elegans] ref|NP_508256.1| F56C3.8 [Caenorhabditis elegans] 1.0E-12
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508256.1 1 12-26
F56C3.8 1 12-26
SNAP00000017308 1 12-26
Sequence
Target Sequence 
>C. ELEGANS:180806_AT
tgaatcgtcacttcattgtcacgaaaatgaagaacactgttcttctgcttattttggctt
tgttctttatatctctaagagacgatggactccaaatgccgaacaccgacctcaagcctg
ggctgttgatgcaaatgatgggaggtctccagtgggaatggggacctcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGAATCGTCACTTCATTGTCACGAA 615 575 14 Antisense
GAACACTGTTCTTCTGCTTATTTTG 97 353 45 Antisense
TGCTTATTTTGGCTTTGTTCTTTAT 38 579 59 Antisense
TTGGCTTTGTTCTTTATATCTCTAA 400 709 67 Antisense
TATCTCTAAGAGACGATGGACTCCA 619 647 83 Antisense
CGATGGACTCCAAATGCCGAACACC 12 251 96 Antisense
CCGACCTCAAGCCTGGGCTGTTGAT 79 265 119 Antisense
AAGCCTGGGCTGTTGATGCAAATGA 199 149 127 Antisense
GATGCAAATGATGGGAGGTCTCCAG 191 413 141 Antisense
ATGGGAGGTCTCCAGTGGGAATGGG 107 49 151 Antisense
GTCTCCAGTGGGAATGGGGACCTCC 297 471 158 Antisense
Sequence Source Affymetrix Proprietary Database