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[182761_at]

Description R04A9.1 /REP_DB=WormBase Gene ID /WP=CE04788 /TR=Q21695 /GB=AAA83288.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 79      4grp_total > 10      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 592
1 2 3 4 range
A 5.3
(-3)
A 		57.6
(-2.5)
P 		16
(-2.9)
A 		597.6
(3)
P 		592
B 43.8
(-3)
A 		74.2
(-2.6)
P 		70.7
(-2.7)
M 		537.1
(3)
P 		493
C 30.2
(-3)
A 		75
(-2.5)
P 		42.2
(-2.9)
M 		525.9
(3)
P 		496
avr 26.4
(-3) 		68.9
(-2.5) 		43
(-2.8) 		553.5
(3) 		527

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 82
1 2 3 4 5 6 range
A 69.3
(1)
P 		62
(0.3)
P 		53.5
(-0.6)
P 		30.1
(-3)
A 		61.5
(0.2)
P 		88.3
(3)
P 		58
B 31.1
(-3)
A 		54.1
(-0.5)
P 		79.9
(2.3)
P 		54.3
(-0.5)
A 		86.5
(3)
P 		65.2
(0.7)
P 		55
C 59
(-0.3)
A 		85.8
(1.7)
P 		22.1
(-3)
A 		75.4
(0.9)
A 		67.5
(0.3)
P 		104.2
(3)
P 		82
avr 53.1
(-2.8) 		67.3
(-0.3) 		51.8
(-3) 		53.3
(-2.7) 		71.8
(0.5) 		85.9
(3) 		34
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 113
1 2 3 4 range
A 1.9
(-3)
A 		12.5
(-2.3)
P 		4.2
(-2.8)
A 		87.5
(3)
P 		86
B 14
(-3)
A 		18.3
(-2.7)
P 		16.4
(-2.9)
M 		114.5
(3)
P 		101
C 10
(-3)
A 		21.6
(-2.1)
P 		14.7
(-2.6)
M 		88.7
(3)
P 		79
avr 8.6
(-3) 		17.5
(-2.4) 		11.8
(-2.8) 		96.9
(3) 		88

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 30
1 2 3 4 5 6 range
A 12.8
(-0.8)
P 		22.1
(3)
P 		11.7
(-1.3)
P 		7.6
(-3)
A 		18.6
(1.6)
P 		21.5
(2.8)
P 		15
B 10.8
(-3)
A 		18
(-1.2)
P 		19.4
(-0.9)
P 		14.4
(-2.1)
A 		35.1
(3)
P 		24.3
(0.3)
P 		24
C 21.9
(0.3)
A 		26.2
(1.2)
P 		5.6
(-3)
A 		15.2
(-1)
A 		21.8
(0.3)
P 		34.9
(3)
P 		29
avr 15.2
(-1.8) 		22.1
(1) 		12.2
(-3) 		12.4
(-2.9) 		25.2
(2.3) 		26.9
(3) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 182761_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18147
Sequence Type Exemplar sequence
Representative Public ID R04A9.1 NCBI
Target Description R04A9.1 /REP_DB=WormBase Gene ID /WP=CE04788 /TR=Q21695 /GB=AAA83288.1 /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_075696(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075696 NCBI Caenorhabditis elegans R04A9.1 (R04A9.1) mRNA, complete cds. 11/11 None
GENEFINDER00000016351 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:397567:405357:1 9/11 None
R04A9.1 ENSEMBL cdna:known chromosome:CEL140:X:404897:405357:1 gene:R04A9.1 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:404896-405357(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl R04A9.1
Entrez Gene 187562 Entrez gene
SwissProt Q21695 EMBL-EBI
WormBase CE04788 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_508097 R04A9.1 [Caenorhabditis elegans] gb|AAA83288.1| Hypothetical protein R04A9.1 [Caenorhabditis elegans] 7.0E-56
blast NP_508097 R04A9.1 [Caenorhabditis elegans] gb|AAA83288.1| Hypothetical protein R04A9.1 [Caenorhabditis elegans] 1.0E-44
blast NP_508096 R04A9.6 [Caenorhabditis elegans] gb|AAL06046.2| Hypothetical protein R04A9.6 [Caenorhabditis elegans] 5.0E-42
blast CAE61445 Hypothetical protein CBG05334 [Caenorhabditis briggsae] 2.0E-23
blast CAE63668 Hypothetical protein CBG08170 [Caenorhabditis briggsae] 1.0E-19
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508097.1 1 15-37
R04A9.1 1 15-37
Sequence
Target Sequence 
>C. ELEGANS:182761_AT
tctttccttctttttaagccatttgccagccattggttggtgaagttcagtcacctaatt
tacgcggaaatgcttttcaggattttgctgattgtgaccattatcgtcaccaactcaaat
gcctgggtaaccgtcccatcagagaccaaagtatccatctacgacttctgtagcttcaag
gtaccatgcgcgccgggacatttgtgccacgaaggtttttgcattcagcagcagtccttt
tcatcttttccacgatcaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTTTCCTTCTTTTTAAGCCATTTG 626 615 34 Antisense
AAGCCATTTGCCAGCCATTGGTTGG 430 149 49 Antisense
GAAGTTCAGTCACCTAATTTACGCG 678 331 75 Antisense
GGATTTTGCTGATTGTGACCATTAT 456 509 113 Antisense
ATCGTCACCAACTCAAATGCCTGGG 692 35 136 Antisense
CCTGGGTAACCGTCCCATCAGAGAC 678 95 155 Antisense
ATCCATCTACGACTTCTGTAGCTTC 17 41 186 Antisense
TGTAGCTTCAAGGTACCATGCGCGC 702 559 202 Antisense
GCCGGGACATTTGTGCCACGAAGGT 497 281 225 Antisense
TGCATTCAGCAGCAGTCCTTTTCAT 128 579 253 Antisense
CCTTTTCATCTTTTCCACGATCAAT 401 269 269 Antisense
Sequence Source Affymetrix Proprietary Database