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[193093_s_at] Cyclic-nucleotide-gated olfactory channel

Description ZC84.2 /REP_DB=WormBase Gene ID /WP=CE27352 /GEN=tax-4 /GB=CAB63418.2 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Cyclic-nucleotide-gated olfactory channel
Cluster 6grp_total > 23      4grp_total > 20      6grp_cgc > 20      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 129
1 2 3 4 range
A 94.2
(0.4)
A 		63.4
(-2.1)
A 		52.5
(-3)
A 		125.1
(3)
P 		73
B 59.7
(-1)
P 		55.6
(-1.3)
A 		30.9
(-3)
A 		117.8
(3)
P 		87
C 94.1
(0.4)
P 		61.5
(-1.1)
A 		19.9
(-3)
A 		149.3
(3)
P 		129
avr 82.7
(0) 		60.2
(-1.4) 		34.4
(-3) 		130.7
(3) 		96

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 66
1 2 3 4 5 6 range
A 86.2
(2.8)
A 		33.2
(-2.1)
A 		88.9
(3)
P 		73.7
(1.6)
A 		34.4
(-2)
A 		23.2
(-3)
A 		66
B 70
(1)
P 		80.4
(3)
A 		57.4
(-1.4)
M 		56.7
(-1.5)
A 		73.4
(1.7)
P 		48.9
(-3)
A 		32
C 87.4
(3)
A 		68
(0.8)
M 		45.4
(-1.7)
A 		55
(-0.7)
A 		38.9
(-2.5)
A 		34.3
(-3)
A 		53
avr 81.2
(3) 		60.5
(0.3) 		63.9
(0.7) 		61.8
(0.5) 		48.9
(-1.2) 		35.5
(-3) 		46
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 34.3
(3)
A 		13.8
(-3)
A 		13.7
(-3)
A 		18.3
(-1.7)
P 		21
B 19
(1)
P 		13.7
(-0.8)
A 		7.2
(-3)
A 		25.1
(3)
P 		18
C 31.2
(3)
P 		17.7
(-0.3)
A 		6.9
(-3)
A 		25.2
(1.5)
P 		24
avr 28.2
(3) 		15.1
(-1.2) 		9.3
(-3) 		22.9
(1.3) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 15.9
(1.5)
A 		11.8
(-0.3)
A 		19.4
(3)
P 		18.7
(2.7)
A 		10.4
(-0.9)
A 		5.7
(-3)
A 		14
B 24.3
(0.9)
P 		26.8
(1.9)
A 		13.9
(-3)
M 		15
(-2.6)
A 		29.8
(3)
P 		18.2
(-1.4)
A 		16
C 32.4
(3)
A 		20.7
(-0.3)
M 		11.6
(-2.9)
A 		11.1
(-3)
A 		12.6
(-2.6)
A 		11.5
(-2.9)
A 		21
avr 24.2
(3) 		19.8
(0.9) 		15
(-1.5) 		14.9
(-1.5) 		17.6
(-0.2) 		11.8
(-3) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193093_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6716
Sequence Type Exemplar sequence
Representative Public ID ZC84.2 NCBI
Target Description ZC84.2 /REP_DB=WormBase Gene ID /WP=CE27352 /GEN=tax-4 /GB=CAB63418.2 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=Cyclic-nucleotide-gated olfactory channel
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_066632(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066632 NCBI Caenorhabditis elegans abnormal CHEmotaxis family member (tax-4) (tax-4) mRNA, complete cds. 11/11 A 
SNAP00000020246 ENSEMBL cdna:SNAP chromosome:CEL140:III:9181455:9185470:1 11/11 None
GENEFINDER00000020256 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:9181455:9186437:1 11/11 None
ZC84.2 ENSEMBL cdna:known chromosome:CEL140:III:9181454:9185797:1 gene:ZC84.2 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
chrIII:9181450-9185466(+) 100.0 100.0
Public Domain and Genome References
Gene Title Cyclic-nucleotide-gated olfactory channel
Gene Symbol tax-4
Ensembl ZC84.2
Entrez Gene 176297 Entrez gene
SwissProt Q03611 EMBL-EBI
WormBase CE27352 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1582542_AT cyclic nucleotide gated channel alpha 1 cfa
CANINE_2:CFA.3753.1.S1_AT cyclic nucleotide gated channel alpha 1 cfa
CANINE_2:CFAAFFX.3796.1.S1_S_AT cyclic nucleotide gated channel alpha 1 cfa
DROSOPHILA_2:1623394_AT dm
DROSGENOME1:147711_AT dm
CHICKEN:GGA.671.1.S1_AT cyclic nucleotide gated channel alpha 1 gga
HG-U133_PLUS_2:206417_AT cyclic nucleotide gated channel alpha 1 hs
HG-U133A:206417_AT cyclic nucleotide gated channel alpha 1 hs
HG-FOCUS:206417_AT cyclic nucleotide gated channel alpha 1 hs
HG-U133A_2:206417_AT cyclic nucleotide gated channel alpha 1 hs
HUGENEFL:S42457_AT cyclic nucleotide gated channel alpha 1 hs
U133_X3P:G4502914_3P_AT cyclic nucleotide gated channel alpha 1 hs
HG-U95AV2:37840_AT cyclic nucleotide gated channel alpha 1 hs
MU11KSUBA:M84742_S_AT cyclic nucleotide gated channel alpha 1 mm
MG-U74AV2:95389_AT cyclic nucleotide gated channel alpha 1 mm
MOE430A:1451763_AT cyclic nucleotide gated channel alpha 1 mm
MOUSE430A_2:1451763_AT cyclic nucleotide gated channel alpha 1 mm
MOUSE430_2:1451763_AT cyclic nucleotide gated channel alpha 1 mm
RN-U34:L02634_S_AT cyclic nucleotide-gated cation channel rn
RG-U34A:L02634_S_AT cyclic nucleotide-gated cation channel rn
RN-U34:U76220_AT cyclic nucleotide-gated cation channel rn
RG-U34A:U76220_AT cyclic nucleotide-gated cation channel rn
RAE230A:1370013_AT cyclic nucleotide-gated cation channel rn
RAT230_2:1370013_AT cyclic nucleotide-gated cation channel rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6811 ion transport inferred from electronic annotation QuickGO AmiGO
6813 potassium ion transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5216 ion channel activity inferred from electronic annotation QuickGO AmiGO
5249 voltage-gated potassium channel activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB63418 Hypothetical protein ZC84.2 [Caenorhabditis elegans] ref|NP_499033.1| abnormal CHEmotaxis family member (tax-4) [Caenorhabditis elegans] sp|Q03611|CNG_CAEEL Cyclic-nucleotide-gated cation channel (Abnormal chemotaxis protein 4) dbj|BAA13180.1| cyclic nucleotide-gated channel [Caenorhabditis elegans] 0.0
blast CAE62779 Hypothetical protein CBG06949 [Caenorhabditis briggsae] 0.0
blast CAA61757 alpha subunit of cone photoreceptor CNG-channel [Gallus gallus] ref|NP_990552.1| cyclic nucleotide gated channel alpha 3 [Gallus gallus] sp|Q90805|CNG1_CHICK Cyclic nucleotide gated channel, cone photoreceptor, alpha subunit (CNG channel 1) (CNG-1) 1.0E-143
Protein Domains
Database ID Description E-Value
Pfam IPR005821 EMBL-EBI Ion transport protein 2.8E-19
Pfam IPR000595 EMBL-EBI Cyclic nucleotide-binding domain 1.4E-29
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499033.1 3 121-140,309-331,389-411
ZC84.2 3 121-140,309-331,389-411
SNAP00000020246 3 121-140,309-331,389-411
GENEFINDER00000020256 5 121-140,309-331,389-411,739-761,771-793
Sequence
Target Sequence 
>C. ELEGANS:193093_S_AT
acgtggtcgtctgcaagtagttgatgacgacggaaagaaagtatttgtaacattacaaga
aggttccgtattcggagagcttagtattctaaacattgctggtagtaaaaacggaaatcg
tcgaactgcaaatgtgcgttcagtcggatatacggatttattcgttttaagcaaaacaga
tttatggaatgcattgagagaatatccggatgcacgaaagctacttcttgccaagggaag
agaaattctgaagaaagataatcttttggatgaaaatgcaccggaagagcaaaaaacagt
ggaggaaattgcagagcatctcaataatgcggttaaagttttacagacaagaatggctcg
gctcatcgtggagcactcaagcaccgaaggaaagttgatgaaaagaattgagatgctcga
gaaacatttaagccggtgttttattccggaaattttcagatacaaagccctggcgcgccg
tcagaaaaccatgcacggtgtctcaatcgacggcggagacatttcaactgacggtgtcga
cgaacgagttcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACGTGGTCGTCTGCAAGTAGTTGAT 115 95 1614 Antisense
GAAGGTTCCGTATTCGGAGAGCTTA 23 335 1672 Antisense
GGAAATCGTCGAACTGCAAATGTGC 377 527 1726 Antisense
GCAAATGTGCGTTCAGTCGGATATA 676 317 1741 Antisense
GCACGAAAGCTACTTCTTGCCAAGG 270 315 1825 Antisense
AGACAAGAATGGCTCGGCTCATCGT 147 73 1958 Antisense
CTCATCGTGGAGCACTCAAGCACCG 424 229 1975 Antisense
CGCGCCGTCAGAAAACCATGCACGG 646 255 2087 Antisense
CATGCACGGTGTCTCAATCGACGGC 349 211 2103 Antisense
GACGGCGGAGACATTTCAACTGACG 687 375 2122 Antisense
CTGACGGTGTCGACGAACGAGTTCG 670 225 2141 Antisense
Sequence Source Affymetrix Proprietary Database