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[192408_at]

Description R06B10.4 /REP_DB=WormBase Gene ID /WP=CE17202 /GEN=trp-2 /TR=O44872 /GB=AAK21447.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=ion transport protein
Cluster 6grp_total > 15      4grp_total > 39      6grp_cgc > 23      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 375
1 2 3 4 range
A 347.3
(3)
P 		147.2
(-0.9)
A 		36.7
(-3)
A 		140.8
(-1)
A 		311
B 334.9
(3)
P 		132.1
(-2.2)
A 		99.5
(-3)
A 		137.3
(-2)
A 		235
C 411.2
(3)
P 		78.9
(-3)
A 		104.9
(-2.5)
A 		241.9
(-0.1)
A 		332
avr 364.5
(3) 		119.4
(-2.2) 		80.4
(-3) 		173.3
(-1) 		284

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 241
1 2 3 4 5 6 range
A 169.1
(-0.1)
A 		295.4
(3)
P 		54.5
(-3)
A 		84.4
(-2.3)
A 		116.2
(-1.5)
A 		102.5
(-1.8)
A 		241
B 260.3
(3)
M 		176
(0.4)
M 		146.4
(-0.5)
A 		97.8
(-2)
A 		66.5
(-3)
A 		74.8
(-2.7)
A 		194
C 243.9
(2.9)
P 		245.5
(3)
A 		149.3
(-1.2)
A 		137.4
(-1.7)
A 		126.9
(-2.1)
A 		107
(-3)
A 		139
avr 224.4
(2.4) 		239
(3) 		116.7
(-2.1) 		106.5
(-2.5) 		103.2
(-2.7) 		94.8
(-3) 		144
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 127
1 2 3 4 range
A 126.5
(3)
P 		32
(-1.9)
A 		9.6
(-3)
A 		20.6
(-2.4)
A 		117
B 106.8
(3)
P 		32.6
(-2.3)
A 		23.1
(-3)
A 		29.2
(-2.6)
A 		84
C 136.1
(3)
P 		22.7
(-3)
A 		36.6
(-2.3)
A 		40.8
(-2)
A 		113
avr 123.1
(3) 		29.1
(-2.6) 		23.1
(-3) 		30.2
(-2.6) 		100

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 93
1 2 3 4 5 6 range
A 31.2
(-1.8)
A 		105
(3)
P 		11.9
(-3)
A 		21.4
(-2.4)
A 		35.1
(-1.5)
A 		25
(-2.2)
A 		93
B 90.6
(3)
M 		58.6
(0)
M 		35.6
(-2.1)
A 		25.9
(-3)
A 		27
(-2.9)
A 		27.9
(-2.8)
A 		65
C 90.4
(3)
P 		74.9
(1.5)
A 		38
(-2)
A 		27.6
(-3)
A 		41.1
(-1.7)
A 		35.8
(-2.2)
A 		63
avr 70.7
(2) 		79.5
(3) 		28.5
(-2.6) 		25
(-3) 		34.4
(-2) 		29.6
(-2.5) 		55
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192408_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8333
Sequence Type Exemplar sequence
Representative Public ID R06B10.4 NCBI
Target Description R06B10.4 /REP_DB=WormBase Gene ID /WP=CE17202 /GEN=trp-2 /TR=O44872 /GB=AAK21447.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=ion transport protein
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_001027532(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027532 NCBI Caenorhabditis elegans TRP (transient receptor potential) channel family member (trp-2) (trp-2) mRNA, complete cds. 11/11 None
GENEFINDER00000022072 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:991868:1001882:1 10/11 None
R06B10.4b ENSEMBL cdna:known chromosome:CEL140:III:991868:1001920:1 gene:R06B10.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_064910 6/11 Cross Hyb Matching Probes A 
SNAP00000022060 4/11 Cross Hyb Matching Probes None
R06B10.4a 6/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
192056 2 1 NM_001027532 192408_at (11)
NM_064910 186381_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:991867-1001882(+) 100.0 100.0
Public Domain and Genome References
Ensembl R06B10.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAN65303 Trp (transient receptor potential) channel family protein 2, isoform b [Caenorhabditis elegans] ref|NP_001022703.1| TRP (transient receptor potential) channel family member (trp-2) [Caenorhabditis elegans] 0.0
blast F88391 protein R06B10.4 [imported] - Caenorhabditis elegans 0.0
blast CAE69113 Hypothetical protein CBG15139 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005821 EMBL-EBI Ion transport protein 3.6E-31
Pfam IPR002110 EMBL-EBI Ankyrin 0.015
Pfam IPR002110 EMBL-EBI Ankyrin 0.043
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001022703.1 5 336-355,368-390,546-568,607-629,644-663
R06B10.4b 5 336-355,368-390,546-568,607-629,644-663
GENEFINDER00000022072 5 336-355,368-390,546-568,607-629,644-663
Sequence
Target Sequence 
>C. ELEGANS:192408_AT
ccttttaacattgtcccatcaccaaaatcaatatattactgcctacactatttgaccaaa
aagctgtgcaattgcacaaaactacagcagccgagcaagcagaaaagcatgcgggtagaa
tcaaaaaatcttgcgatccgtcaacgaccgcgaaaacaactaccggagaactgtgcgaaa
aatcgctacagcggagcacaatttcattcacgaaacaagaaaaagaccgccatggcagag
cgtcgtttgaaaaattcggcgcttttactgaaagaattcccggtgccacagatgttcaag
gccggtcagcggaatatgagcatctcctcgattcagtcaaacgggcggctaaaaccatca
ttcatgccgagcagctccaagttgagctggagcaatctgaaagtgaaagcttcacgtctt
tcaaaatccaaatcaatcgatactacacatctcgatgttacccggttacatgcgttgagc
aaaaaatcgccgcttcaaaaacaagcccatacgagtttcgacacct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCTTTTAACATTGTCCCATCACCAA 528 267 2152 Antisense
ATTACTGCCTACACTATTTGACCAA 308 13 2186 Antisense
AAAAATCTTGCGATCCGTCAACGAC 601 121 2275 Antisense
AGCGGAGCACAATTTCATTCACGAA 654 81 2341 Antisense
AAGACCGCCATGGCAGAGCGTCGTT 693 153 2374 Antisense
AGAATTCCCGGTGCCACAGATGTTC 549 73 2424 Antisense
TATGAGCATCTCCTCGATTCAGTCA 9 657 2466 Antisense
AACGGGCGGCTAAAACCATCATTCA 453 143 2491 Antisense
AGCTTCACGTCTTTCAAAATCCAAA 364 79 2559 Antisense
GTTACCCGGTTACATGCGTTGAGCA 272 445 2608 Antisense
CAAGCCCATACGAGTTTCGACACCT 488 183 2653 Antisense
Sequence Source Affymetrix Proprietary Database