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[178140_s_at]

Description R04D3.2 /REP_DB=WormBase Gene ID /WP=CE06223 /TR=Q21712 /GB=CAA94162.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 79      4grp_total > 40      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 64
1 2 3 4 range
A 8
(-3)
A 		71.9
(3)
A 		46.8
(0.6)
A 		30.2
(-0.9)
A 		64
B 39.3
(2.8)
A 		15.4
(-3)
A 		40.3
(3)
A 		30.4
(0.6)
A 		25
C 9.2
(-3)
A 		11.4
(-2.7)
A 		53.2
(3)
A 		45.7
(2)
M 		44
avr 18.8
(-3) 		32.9
(0) 		46.8
(3) 		35.4
(0.6) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 399
1 2 3 4 5 6 range
A 45.1
(-2.4)
A 		8.3
(-3)
A 		64.2
(-2.2)
A 		14.3
(-2.9)
A 		164.4
(-0.6)
P 		405.7
(3)
P 		397
B 47.9
(-2.3)
A 		17.4
(-2.9)
A 		23.8
(-2.8)
A 		10.8
(-3)
A 		203.2
(0.5)
P 		338.9
(3)
P 		328
C 6.9
(-3)
A 		74
(-1.8)
A 		21.2
(-2.7)
A 		51.4
(-2.2)
A 		163.5
(-0.2)
P 		338.9
(3)
P 		332
avr 33.3
(-2.9) 		33.2
(-2.9) 		36.4
(-2.8) 		25.5
(-3) 		177
(-0.3) 		361.2
(3) 		336
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 2.9
(-3)
A 		15.6
(3)
A 		12.2
(1.4)
A 		4.4
(-2.3)
A 		13
B 12.5
(3)
A 		3.8
(-3)
A 		9.3
(0.8)
A 		6.5
(-1.1)
A 		9
C 3
(-3)
A 		3.3
(-2.9)
A 		18.6
(3)
A 		7.7
(-1.2)
M 		16
avr 6.1
(-3) 		7.6
(-1.8) 		13.4
(3) 		6.2
(-2.9) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 124
1 2 3 4 5 6 range
A 8.3
(-2.7)
A 		2.9
(-3)
A 		14
(-2.3)
A 		3.6
(-3)
A 		49.6
(-0.1)
P 		98.8
(3)
P 		96
B 16.7
(-2.3)
A 		5.8
(-2.9)
A 		5.8
(-2.9)
A 		2.9
(-3)
A 		82.6
(0.9)
P 		126.4
(3)
P 		124
C 2.6
(-3)
A 		22.6
(-1.9)
A 		5.4
(-2.8)
A 		10.3
(-2.6)
A 		52.9
(-0.3)
P 		113.5
(3)
P 		111
avr 9.2
(-2.8) 		10.4
(-2.7) 		8.4
(-2.8) 		5.6
(-3) 		61.7
(0.1) 		112.9
(3) 		107
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 178140_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17425
Sequence Type Exemplar sequence
Representative Public ID R04D3.2 NCBI
Target Description R04D3.2 /REP_DB=WormBase Gene ID /WP=CE06223 /TR=Q21712 /GB=CAA94162.1 /SUBMIT=HINXTON /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_077807(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077807 NCBI Caenorhabditis elegans R04D3.2 (R04D3.2) mRNA, complete cds. 11/11 None
SNAP00000014107 ENSEMBL cdna:SNAP chromosome:CEL140:X:13285187:13286550:-1 11/11 None
GENEFINDER00000014119 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:13285187:13286550:-1 11/11 None
R04D3.2 ENSEMBL cdna:known chromosome:CEL140:X:13285060:13286553:-1 gene:R04D3.2 11/11 A 
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:13285186-13286550(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R04D3.2
Entrez Gene 181451 Entrez gene
SwissProt Q21712 EMBL-EBI
WormBase CE06223 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA94162 Hypothetical protein R04D3.2 [Caenorhabditis elegans] ref|NP_510208.1| R04D3.2 [Caenorhabditis elegans] 1.0E-177
blast CAA94163 Hypothetical protein R04D3.3 [Caenorhabditis elegans] ref|NP_510210.1| R04D3.3 [Caenorhabditis elegans] 2.0E-88
blast CAE61408 Hypothetical protein CBG05271 [Caenorhabditis briggsae] 3.0E-69
Sequence
Target Sequence 
>C. ELEGANS:178140_S_AT
agctctttcagacgccatcaataatcttccaggaagctacaatagcaaatctgacagaaa
ttctaagaagttggcagagtctgacacggaggttggcgatgatcctgtgtaccgtcggaa
gaaagatgacaacgaggatagtgctgaagaaaagaagtcttaccgccgtggaacgccaaa
gggtcgccaagaagaaccggaaaatgactacgaagacgaggaacgtgaggagaaggagtc
ccgacaaaaaagtcgtcgaagcaacaactctagatctcactcaactcgtgaacactttca
agaagatgaatcagacaatgagaatgaggataatgaagaggatgaaagtaagcctcgtat
gaccaatcgtcgtagtcgcaatgaggatgaagatgactttttcgacgatgaagatgactc
caagccacaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCTCTTTCAGACGCCATCAATAAT 67 81 624 Antisense
GACGCCATCAATAATCTTCCAGGAA 518 381 634 Antisense
GCAGAGTCTGACACGGAGGTTGGCG 115 291 697 Antisense
GAGGTTGGCGATGATCCTGTGTACC 340 403 712 Antisense
GATGATCCTGTGTACCGTCGGAAGA 259 411 721 Antisense
GGAACGCCAAAGGGTCGCCAAGAAG 694 471 793 Antisense
GAAGCAACAACTCTAGATCTCACTC 141 341 881 Antisense
GATCTCACTCAACTCGTGAACACTT 630 419 896 Antisense
AAGCCTCGTATGACCAATCGTCGTA 171 149 973 Antisense
ACCAATCGTCGTAGTCGCAATGAGG 342 85 985 Antisense
CGATGAAGATGACTCCAAGCCACAA 332 249 1029 Antisense
Sequence Source Affymetrix Proprietary Database