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[193473_s_at]

Description F38E11.7 /REP_DB=WormBase Gene ID /WP=CE10056 /GEN=wrt-3 /TR=Q20170 /GB=CAA92775.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=cGMP-gated cation channel protein
Cluster 6grp_highest_10_10 > 07      6grp_high1_10_10 > 33      4grp_highest_8_8 > 28      4grp_high_8_8 > 0      6grp_highest_nonorm > 80      6grp_total > 30      4grp_total > 07      6grp_highest_sub > 04      6grp_cgc > 73      6grp_high1_sub > 02      6grp_cgc_sub > 02_03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 120
1 2 3 4 range
A 173
(1.5)
P 		156.7
(-3)
P 		178.6
(3)
P 		160.2
(-2)
P 		22
B 184.4
(0.3)
P 		159.1
(-3)
P 		173.4
(-1.1)
P 		204.9
(3)
P 		46
C 201.9
(-0.1)
P 		144.5
(-3)
P 		263.8
(3)
P 		264.6
(3)
P 		120
avr 186.4
(0.5) 		153.4
(-3) 		205.3
(2.5) 		209.9
(3) 		57

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 261
1 2 3 4 5 6 range
A 104.6
(-2.1)
P 		274.9
(2.1)
P 		245.8
(1.4)
P 		310.5
(3)
P 		147.7
(-1.1)
P 		70.4
(-3)
P 		240
B 153.3
(-1.2)
P 		331.5
(3)
P 		207.8
(0.1)
P 		185.1
(-0.5)
P 		191.8
(-0.3)
P 		77.6
(-3)
P 		254
C 206.6
(-0.1)
P 		274.9
(1.6)
P 		213.8
(0)
P 		331
(3)
P 		170
(-1.1)
P 		93.9
(-3)
P 		237
avr 154.8
(-0.9) 		293.8
(3) 		222.5
(1) 		275.5
(2.5) 		169.8
(-0.5) 		80.6
(-3) 		213
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 69
1 2 3 4 range
A 63
(3)
P 		34
(-1.4)
P 		46.7
(0.5)
P 		23.5
(-3)
P 		40
B 58.8
(3)
P 		39.3
(-3)
P 		40.2
(-2.7)
P 		43.7
(-1.6)
P 		20
C 66.8
(0)
P 		41.5
(-3)
P 		92
(3)
P 		44.6
(-2.6)
P 		51
avr 62.9
(3) 		38.3
(-2.8) 		59.6
(2.2) 		37.3
(-3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 93
1 2 3 4 5 6 range
A 19.3
(-2.8)
P 		97.8
(3)
P 		53.5
(-0.3)
P 		78.7
(1.6)
P 		44.6
(-1)
P 		17.1
(-3)
P 		81
B 53.3
(-1.2)
P 		110.3
(3)
P 		50.4
(-1.4)
P 		49
(-1.5)
P 		77.9
(0.6)
P 		28.9
(-3)
P 		81
C 76.6
(2.2)
P 		83.9
(3)
P 		54.4
(-0.4)
P 		66.6
(1)
P 		55
(-0.3)
P 		31.5
(-3)
P 		52
avr 49.7
(-1) 		97.3
(3) 		52.8
(-0.7) 		64.8
(0.3) 		59.2
(-0.2) 		25.8
(-3) 		72
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193473_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9926
Sequence Type Exemplar sequence
Representative Public ID F38E11.7 NCBI
Target Description F38E11.7 /REP_DB=WormBase Gene ID /WP=CE10056 /GEN=wrt-3 /TR=Q20170 /GB=CAA92775.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=cGMP-gated cation channel 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_069272(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069272 NCBI Caenorhabditis elegans WaRThog (hedgehog-like family) family member (wrt-3) (wrt-3) mRNA, complete cds. 9/11 None
SNAP00000022716 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9475970:9477262:-1 9/11 None
GENEFINDER00000022721 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9475970:9480936:-1 10/11 None
F38E11.7 ENSEMBL cdna:known chromosome:CEL140:IV:9475840:9477303:-1 gene:F38E11.7 9/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001028023 1/11 Cross Hyb Matching Probes None
SNAP00000022717 2/11 Cross Hyb Matching Probes None
F38E11.12 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:9475975-9480942(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol wrt-3
Ensembl F38E11.7
Entrez Gene 177781 Entrez gene
SwissProt Q20170 EMBL-EBI
WormBase CE34013 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAE74023 Hypothetical protein CBG21671 [Caenorhabditis briggsae] 0.0
blast CAD91630 Hypothetical protein F38E11.12 [Caenorhabditis elegans] ref|NP_001023194.1| Cyclic Nucleotide Gated channel family member (cng-3) [Caenorhabditis elegans] 0.0
blast CAA92775 Hypothetical protein F38E11.7 [Caenorhabditis elegans] ref|NP_501673.2| WaRThog (hedgehog-like family) family member (wrt-3) [Caenorhabditis elegans] 1.0E-93
blast CAA92775 Hypothetical protein F38E11.7 [Caenorhabditis elegans] ref|NP_501673.2| WaRThog (hedgehog-like family) family member (wrt-3) [Caenorhabditis elegans] 1.0E-92
blast CAE74023 Hypothetical protein CBG21671 [Caenorhabditis briggsae] 3.0E-71
blast AAD33832 warthog protein WRT-3 [Caenorhabditis elegans] 2.0E-64
Protein Domains
Database ID Description E-Value
Pfam IPR005821 EMBL-EBI Ion transport protein 5.2E-21
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 7.7E-17
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000022721 4 61-83,96-118,138-157,194-216
Sequence
Target Sequence 
>C. ELEGANS:193473_S_AT
gcaattgatactcttgaacttcatgacaagatgacggaaatggaagaagagttttgggtg
agtgcagaccagatactcttcttggcggattactgtggatccgatcaagtaccatatgga
atggaagttcatcacagtggagtggttcgattaatgtgttcaaaacctaattgctacgac
aaaaattattcggactgtccagaacgtgctgaaagtcggcatggatgtcagaagtcgaat
caatgggttggaggatttgagaaaaatattgaaggagatttatatacaatgtgctgcgaa
tttgaaggattagagaaatatgctaaagttcgatattcagatgtccgtattcgacgaggt
gaatttttcgaaggagaagaaaaagaaaatgatgatggagatgtggtaaaatttgatgta
ataaaagatattcgaatgcataaggatgatgaaggacaagcttactacaacctgacggtt
ctttcattcaattgtgaatcaattcccgatgtgaaaccagcttggt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAATTGATACTCTTGAACTTCATG 626 321 1747 Antisense
GAGTTTTGGGTGAGTGCAGACCAGA 208 399 1795 Antisense
TACTGTGGATCCGATCAAGTACCAT 447 645 1837 Antisense
GAAGTTCATCACAGTGGAGTGGTTC 53 337 1870 Antisense
GGAGTGGTTCGATTAATGTGTTCAA 546 515 1885 Antisense
GTGTTCAAAACCTAATTGCTACGAC 431 485 1902 Antisense
ATTCGGACTGTCCAGAACGTGCTGA 514 3 1934 Antisense
GAACGTGCTGAAAGTCGGCATGGAT 99 349 1948 Antisense
GGACAAGCTTACTACAACCTGACGG 683 523 2200 Antisense
CAACCTGACGGTTCTTTCATTCAAT 93 187 2214 Antisense
ATTCCCGATGTGAAACCAGCTTGGT 426 9 2248 Antisense
Sequence Source Affymetrix Proprietary Database