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[186341_at] ion channel protein

Description Y71D11A.5 /REP_DB=WormBase Gene ID /WP=CE25549 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=ion channel protein
Cluster 6grp_high1_10_10 > 06      4grp_high_8_8 > 33      6grp_total > 15      4grp_total > 46      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 130
1 2 3 4 range
A 218.4
(3)
P 		137.2
(-1)
P 		97.8
(-3)
A 		117.6
(-2)
P 		121
B 221.9
(3)
P 		111.3
(-2.5)
P 		108.7
(-2.7)
P 		102.2
(-3)
P 		120
C 227.6
(3)
P 		164.7
(-1.1)
P 		135.7
(-3)
P 		140.8
(-2.7)
P 		92
avr 222.6
(3) 		137.7
(-1.7) 		114.1
(-3) 		120.2
(-2.7) 		109

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 266
1 2 3 4 5 6 range
A 227.6
(3)
P 		184.3
(1.4)
P 		92.2
(-1.9)
P 		118.8
(-1)
P 		62.4
(-3)
A 		80.1
(-2.4)
A 		165
B 189.8
(3)
P 		178.3
(2.6)
P 		102.5
(-0.2)
P 		53.4
(-2.1)
A 		62.2
(-1.7)
P 		28
(-3)
A 		162
C 293.7
(3)
P 		147.1
(-0.8)
P 		111.8
(-1.7)
P 		75.8
(-2.7)
A 		70.4
(-2.8)
P 		63.5
(-3)
P 		230
avr 237
(3) 		169.9
(0.8) 		102.2
(-1.5) 		82.7
(-2.1) 		65
(-2.7) 		57.2
(-3) 		180
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 62
1 2 3 4 range
A 79.5
(3)
P 		29.8
(-1.8)
P 		25.6
(-2.2)
A 		17.2
(-3)
P 		62
B 70.8
(3)
P 		27.5
(-2.3)
P 		25.2
(-2.6)
P 		21.8
(-3)
P 		49
C 75.4
(3)
P 		47.4
(-0.2)
P 		47.3
(-0.3)
P 		23.7
(-3)
P 		52
avr 75.2
(3) 		34.9
(-1.5) 		32.7
(-1.7) 		20.9
(-3) 		54

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 98
1 2 3 4 5 6 range
A 42
(-0)
P 		65.5
(3)
P 		20.1
(-2.8)
P 		30.1
(-1.5)
P 		18.8
(-3)
A 		19.5
(-2.9)
A 		47
B 66
(3)
P 		59.3
(2.3)
P 		24.9
(-1.4)
P 		14.2
(-2.6)
A 		25.3
(-1.4)
P 		10.4
(-3)
A 		56
C 108.8
(3)
P 		44.9
(-1.1)
P 		28.5
(-2.1)
P 		15.2
(-3)
A 		22.8
(-2.5)
P 		21.2
(-2.6)
P 		94
avr 72.3
(3) 		56.6
(1.3) 		24.5
(-2.2) 		19.8
(-2.7) 		22.3
(-2.4) 		17
(-3) 		55
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186341_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8198
Sequence Type Exemplar sequence
Representative Public ID Y71D11A.5 NCBI
Target Description Y71D11A.5 /REP_DB=WormBase Gene ID /WP=CE25549 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=ion 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_064937(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064937 NCBI Caenorhabditis elegans Y71D11A.5 (Y71D11A.5) mRNA, complete cds. 11/11 None
GENEFINDER00000010964 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:1125553:1135963:-1 11/11 None
Y71D11A.5 ENSEMBL cdna:known chromosome:CEL140:III:1125231:1136013:-1 gene:Y71D11A.5 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000010963 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:1125552-1135583(-) 97.9 100.0
Public Domain and Genome References
Gene Title ion channel protein
Ensembl Y71D11A.5
Entrez Gene 175279 Entrez gene
SwissProt Q95Y52 EMBL-EBI
WormBase CE29908 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
6811 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
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
45211 postsynaptic membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4890 GABA-A receptor activity inferred from electronic annotation QuickGO AmiGO
5230 extracellular ligand-gated ion channel activity inferred from electronic annotation QuickGO AmiGO
30594 neurotransmitter receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK85510 Hypothetical protein Y71D11A.5 [Caenorhabditis elegans] ref|NP_497338.2| Y71D11A.5 [Caenorhabditis elegans] 0.0
blast CAE66453 Hypothetical protein CBG11729 [Caenorhabditis briggsae] 0.0
blast CAE68641 Hypothetical protein CBG14531 [Caenorhabditis briggsae] 1.0E-112
blast CAA92466 Hypothetical protein F58G6.4 [Caenorhabditis elegans] ref|NP_501715.1| F58G6.4 [Caenorhabditis elegans] 1.0E-108
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 2.2E-12
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 5.4E-8
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 3.9E-54
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 2.2E-12
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 5.4E-8
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.0E-59
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497338.2 4 273-295,302-321,336-358,483-505
Y71D11A.5 4 273-295,302-321,336-358,483-505
GENEFINDER00000010964 4 314-336,343-362,377-399,524-546
Sequence
Target Sequence 
>C. ELEGANS:186341_AT
tgtatatcctggatttccttcgcacttggctccaaagctattccggcacgtaccatgttg
ggagttaacagcttacttgcaatgactttccagtttggtaacattatcaggaatctgccg
agggtttcttatgtaaaagctatcgatgtatggatgctgtcctgcatgacatttgtgttc
tgctccctgctagaactcgcctgggtcggctacctctcccgggaagaggagccaacaagc
gcaaaatgtctccaaccatcggctcaggtggctccaaaaccttgtcatccaccgccagta
caacagaatgccaacaactcatcggtgcaccggaggcagaagcagccgaaaaatgaggag
gagagtgctcttttgagcttgcgggacaatgattatgggtatattccaccgggatttggg
cttaatggcaatgtggcaaatgctatgaagagtttcagttcttcaaaacaacgccgcgaa
atacttgctcacaaaatcgattcggtgtccgttttcatgttccccttcctgttcgtactc
ttcaatattgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTATATCCTGGATTTCCTTCGCAC 287 561 910 Antisense
CACTTGGCTCCAAAGCTATTCCGGC 336 197 932 Antisense
TATTCCGGCACGTACCATGTTGGGA 50 665 948 Antisense
AACAGCTTACTTGCAATGACTTTCC 277 137 976 Antisense
GGAATCTGCCGAGGGTTTCTTATGT 252 533 1019 Antisense
GCATGACATTTGTGTTCTGCTCCCT 233 311 1073 Antisense
GTGGCTCCAAAACCTTGTCATCCAC 451 491 1177 Antisense
AATGCCAACAACTCATCGGTGCACC 324 167 1216 Antisense
AACAACGCCGCGAAATACTTGCTCA 347 135 1376 Antisense
GATTCGGTGTCCGTTTTCATGTTCC 133 433 1408 Antisense
TCCTGTTCGTACTCTTCAATATTGC 474 593 1436 Antisense
Sequence Source Affymetrix Proprietary Database