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[192583_at] potassium channel protein

Description R186.5 /REP_DB=WormBase Gene ID /WP=CE12878 /GEN=shw-3 /TR=Q22012 /GB=CAB01442.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=potassium channel protein
Cluster 6grp_highest_10_10 > 20      6grp_high1_10_10 > 23      6grp_highest_nonorm > 71      6grp_total > 03      4grp_total > 30      6grp_highest_sub > De      6grp_cgc > 51      6grp_high1_sub > 02      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 308
1 2 3 4 range
A 460.7
(3)
P 		189.1
(-2.4)
A 		161.4
(-3)
A 		298.1
(-0.3)
P 		299
B 418.8
(3)
P 		202.9
(-1.9)
A 		152.7
(-3)
P 		367.8
(1.9)
P 		266
C 408.9
(3)
P 		182.4
(-2.5)
A 		159.9
(-3)
A 		313.7
(0.7)
P 		249
avr 429.5
(3) 		191.5
(-2.3) 		158
(-3) 		326.5
(0.7) 		272

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 276
1 2 3 4 5 6 range
A 442.4
(3)
P 		317
(0.3)
P 		323.1
(0.4)
P 		309.5
(0.1)
P 		325.2
(0.5)
P 		166.6
(-3)
P 		276
B 321
(0)
P 		408.2
(3)
P 		247.8
(-2.5)
P 		355.7
(1.2)
P 		330.3
(0.3)
P 		232.4
(-3)
P 		176
C 220.2
(-3)
P 		360.3
(2.7)
P 		366.7
(3)
P 		350.2
(2.3)
P 		246.2
(-1.9)
P 		273
(-0.8)
P 		147
avr 327.9
(1.5) 		361.8
(3) 		312.5
(0.9) 		338.5
(2) 		300.6
(0.3) 		224
(-3) 		138
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 132
1 2 3 4 range
A 167.7
(3)
P 		41.1
(-3)
A 		42.2
(-2.9)
A 		43.6
(-2.9)
P 		127
B 133.5
(3)
P 		50.1
(-2.1)
A 		35.4
(-3)
P 		78.4
(-0.4)
P 		98
C 135.4
(3)
P 		52.4
(-3)
A 		55.7
(-2.8)
A 		52.9
(-3)
P 		83
avr 145.5
(3) 		47.9
(-2.8) 		44.4
(-3) 		58.3
(-2.2) 		101

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 95
1 2 3 4 5 6 range
A 81.6
(0.4)
P 		112.7
(3)
P 		70.4
(-0.5)
P 		78.5
(0.2)
P 		98.1
(1.8)
P 		40.6
(-3)
P 		72
B 111.7
(1.1)
P 		135.9
(3)
P 		60.2
(-3)
P 		94.2
(-0.3)
P 		134.2
(2.9)
P 		86.7
(-0.9)
P 		76
C 81.6
(-1.3)
P 		109.9
(3)
P 		93.3
(0.5)
P 		70.4
(-3)
P 		79.7
(-1.6)
P 		91.4
(0.2)
P 		40
avr 91.6
(-0.6) 		119.5
(3) 		74.6
(-2.8) 		81
(-2) 		104
(1) 		72.9
(-3) 		47
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192583_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14295
Sequence Type Exemplar sequence
Representative Public ID R186.5 NCBI
Target Description R186.5 /REP_DB=WormBase Gene ID /WP=CE12878 /GEN=shw-3 /TR=Q22012 /GB=CAB01442.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=potassium 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_073847(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073847 NCBI Caenorhabditis elegans SHaW family of potassium channels family member (shw-3) (shw-3) mRNA, complete cds. 11/11 None
SNAP00000011792 ENSEMBL cdna:SNAP chromosome:CEL140:V:12976002:12978921:-1 11/11 None
GENEFINDER00000011797 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12976002:12978931:-1 11/11 None
R186.5 ENSEMBL cdna:known chromosome:CEL140:V:12976002:12978921:-1 gene:R186.5 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
chrV:12975990-12978921(-) 100.0 100.0
Public Domain and Genome References
Gene Title potassium channel protein
Gene Symbol shw-3
Ensembl R186.5
Entrez Gene 191761 Entrez gene
SwissProt Q22012 EMBL-EBI
WormBase CE37401 Wormbase
Functional Annotations
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
8076 voltage-gated potassium channel complex inferred from electronic annotation QuickGO AmiGO
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
5515 protein binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB01442 Hypothetical protein R186.5 [Caenorhabditis elegans] ref|NP_506248.2| SHaW family of potassium channels family member (shw-3) [Caenorhabditis elegans] 0.0
blast CAE64702 Hypothetical protein CBG09488 [Caenorhabditis briggsae] 0.0
blast AAB39267 Shaw potassium channel 1.0E-160
Protein Domains
Database ID Description E-Value
Pfam IPR005821 EMBL-EBI Ion transport protein 1.3E-38
Pfam IPR003131 EMBL-EBI K+ channel tetramerisation 3.6E-48
Pfam IPR005821 EMBL-EBI Ion transport protein 1.3E-38
Pfam IPR003131 EMBL-EBI K+ channel tetramerisation 3.6E-48
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506248.2 5 166-188,269-291,328-347,360-382,397-419
R186.5 5 166-188,269-291,328-347,360-382,397-419
SNAP00000011792 5 166-188,269-291,328-347,360-382,397-419
GENEFINDER00000011797 5 170-192,273-295,332-351,364-386,401-423
Sequence
Target Sequence 
>C. ELEGANS:192583_AT
gatcttgagttcttctccatcattcgtattatgagacttttcaaattgactcatcataat
tcgggactcaagattttgatgcacaccttccgagcatcagcaaaggaattgatgctactt
gtattctttttggtattgggagttgttgtatttgcatcactggtgtattatgcagaacgg
gtggaaagtaatgaagataatcaatttgtgtcaattccgattggattgtggtgggcgatc
gtcacaatgacaacaattggctatggtgacataacacctcatacatatctgggccgcctg
attggttcgatttgtgctctcgctggtgtattgacaatcgctttgccagttccagtcatc
gtctctaacttcgccatgttctattcccatacacaagctcgttcaaagatgcccaagaaa
agacgaggagtgctctcaatggatcaagttgctcagcatgtaagtaaaacatgctccggt
tcgaaattccaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATCTTGAGTTCTTCTCCATCATTC 386 419 886 Antisense
CAAGATTTTGATGCACACCTTCCGA 428 185 954 Antisense
GTGGTGGGCGATCGTCACAATGACA 55 489 1113 Antisense
TAACACCTCATACATATCTGGGCCG 570 639 1157 Antisense
CATATCTGGGCCGCCTGATTGGTTC 30 215 1169 Antisense
TGATTGGTTCGATTTGTGCTCTCGC 629 563 1184 Antisense
GTGCTCTCGCTGGTGTATTGACAAT 283 479 1199 Antisense
TATTGACAATCGCTTTGCCAGTTCC 64 665 1214 Antisense
TCTCTAACTTCGCCATGTTCTATTC 689 609 1247 Antisense
TATTCCCATACACAAGCTCGTTCAA 546 663 1267 Antisense
ACATGCTCCGGTTCGAAATTCCAAT 630 105 1354 Antisense
Sequence Source Affymetrix Proprietary Database