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[187869_s_at]

Description Y55F3BR.D_rc /REP_DB=WormBase Gene ID /WP=CE22537 /CHR=4 /FEA=Sanger Annotation /REVCOMP /DEF=(ST.LOUIS) protein_id:AAF59602.1
Cluster 6grp_total > 39      4grp_total > 37      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 32
1 2 3 4 range
A 25.4
(1.5)
A 		32.9
(3)
A 		3.1
(-3)
A 		5.5
(-2.5)
A 		30
B 33.8
(3)
A 		25.1
(1.1)
A 		5.6
(-3)
A 		12.8
(-1.5)
A 		28
C 12.2
(0.2)
A 		7.9
(-1.2)
A 		2.3
(-3)
A 		20.8
(3)
A 		19
avr 23.8
(3) 		22
(2.5) 		3.7
(-3) 		13
(-0.2) 		20

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 62
1 2 3 4 5 6 range
A 63.4
(3)
A 		3.2
(-3)
A 		3.2
(-3)
A 		32.5
(-0.1)
A 		9.4
(-2.4)
A 		28.6
(-0.5)
A 		60
B 18.8
(1.4)
A 		24.9
(3)
A 		2.5
(-2.8)
A 		1.7
(-3)
A 		8.8
(-1.2)
A 		24.1
(2.8)
A 		23
C 37.7
(3)
P 		26.6
(0.9)
A 		6.2
(-3)
A 		10.1
(-2.3)
A 		37.7
(3)
A 		17.2
(-0.9)
A 		32
avr 40
(3) 		18.2
(-0.6) 		4
(-3) 		14.8
(-1.2) 		18.6
(-0.6) 		23.3
(0.2) 		36
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 9.3
(3)
A 		7.1
(1.4)
A 		0.8
(-3)
A 		0.8
(-3)
A 		9
B 10.8
(3)
A 		6.2
(0.1)
A 		1.3
(-3)
A 		2.7
(-2.1)
A 		10
C 4.1
(3)
A 		2.3
(-0.3)
A 		0.8
(-3)
A 		3.5
(1.9)
A 		3
avr 8.1
(3) 		5.2
(0.5) 		1
(-3) 		2.3
(-1.9) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14
1 2 3 4 5 6 range
A 11.7
(3)
A 		1.1
(-2.8)
A 		0.7
(-3)
A 		8.3
(1.1)
A 		2.8
(-1.9)
A 		7
(0.4)
A 		11
B 6.6
(1.3)
A 		8.3
(2.5)
A 		0.6
(-2.9)
A 		0.5
(-3)
A 		3.6
(-0.8)
A 		9
(3)
A 		9
C 14
(3)
P 		8.1
(0.1)
A 		1.6
(-3)
A 		2
(-2.8)
A 		12.2
(2.1)
A 		5.8
(-1)
A 		12
avr 10.8
(3) 		5.8
(-0.1) 		1
(-3) 		3.6
(-1.4) 		6.2
(0.2) 		7.3
(0.9) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187869_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28193
Sequence Type Exemplar sequence
Representative Public ID Y55F3BR.D NCBI
Target Description Y55F3BR.D_rc /REP_DB=WormBase Gene ID /WP=CE22537 /CHR=4 /FEA=Sanger Annotation /REVCOMP /DEF=(ST.LOUIS) protein_id:AAF59602.1
Cluster Evidence This cluster is supported by a 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_067599(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067599 NCBI Caenorhabditis elegans Y55F3BR.4 (Y55F3BR.4) mRNA, complete cds. 11/11 None
SNAP00000039567 ENSEMBL cdna:SNAP chromosome:CEL140:IV:845881:846791:1 11/11 None
GENEFINDER00000039579 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:845881:848850:1 11/11 None
Y55F3BR.4 ENSEMBL cdna:known chromosome:CEL140:IV:845881:848850:1 gene:Y55F3BR.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
chrIV:846366-846731(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y55F3BR.4
Entrez Gene 176910 Entrez gene
SwissProt Q8WTK7 EMBL-EBI
WormBase CE30056 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK68534 Hypothetical protein Y55F3BR.4 [Caenorhabditis elegans] ref|NP_500000.2| Y55F3BR.4 [Caenorhabditis elegans] 0.0
blast CAE56259 Hypothetical protein CBG23901 [Caenorhabditis briggsae] 0.0
blast AAK68534 Hypothetical protein Y55F3BR.4 [Caenorhabditis elegans] ref|NP_500000.2| Y55F3BR.4 [Caenorhabditis elegans] 1.0E-108
blast CAE56259 Hypothetical protein CBG23901 [Caenorhabditis briggsae] 2.0E-84
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_500000.2 4 10-32,221-240,266-288,421-443
Y55F3BR.4 4 10-32,221-240,266-288,421-443
GENEFINDER00000039579 4 221-238,245-262,272-294,378-400
Sequence
Target Sequence 
>C. ELEGANS:187869_S_AT
gaaacctctacctcgaggtgataatagtgatgacctggatagacgagcgtctgcggctcc
gcgagctccaagatcgattctcaatgccgtcagaatacccgccttggcatccgtctctag
tctttgcaccgcgcctggaagtacccgttcgagagcttcacgtgcacgctgtccgtgggc
ccggagggtgacgaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAACCTCTACCTCGAGGTGATAAT 382 357 52 Antisense
ACCTCGAGGTGATAATAGTGATGAC 280 87 61 Antisense
AGTGATGACCTGGATAGACGAGCGT 465 59 77 Antisense
GATGACCTGGATAGACGAGCGTCTG 621 411 80 Antisense
TGGATAGACGAGCGTCTGCGGCTCC 256 551 87 Antisense
CGCGAGCTCCAAGATCGATTCTCAA 553 255 111 Antisense
AGATCGATTCTCAATGCCGTCAGAA 275 67 122 Antisense
TTCTCAATGCCGTCAGAATACCCGC 303 691 129 Antisense
CTGGAAGTACCCGTTCGAGAGCTTC 516 239 186 Antisense
GAAGTACCCGTTCGAGAGCTTCACG 289 337 189 Antisense
TCCGTGGGCCCGGAGGGTGACGAGA 369 595 223 Antisense
Sequence Source Affymetrix Proprietary Database