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[192706_at] potassium channel protein

Description C40C9.1 /REP_DB=WormBase Gene ID /WP=CE24839 /GEN=twk-4 /TR=O76790 /GB=CAB61045.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=potassium channel protein
Cluster 6grp_total > 23      4grp_total > 44      6grp_cgc > 30      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 166
1 2 3 4 range
A 145
(-1.5)
A 		246.8
(3)
A 		155.9
(-1)
A 		109.6
(-3)
A 		137
B 181
(2.7)
A 		161.8
(1.5)
A 		184.7
(3)
A 		96
(-3)
A 		89
C 195.4
(0.4)
A 		261.8
(3)
A 		106.6
(-3)
A 		190.4
(0.2)
A 		155
avr 173.8
(-0.3) 		223.5
(3) 		149.1
(-1.9) 		132
(-3) 		92

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 142
1 2 3 4 5 6 range
A 163.4
(3)
A 		121.6
(0.8)
A 		107.9
(0)
A 		89.6
(-1)
A 		51.9
(-3)
A 		79.7
(-1.5)
A 		112
B 176.6
(3)
A 		154.2
(2.1)
A 		155.8
(2.1)
A 		113.8
(0.3)
A 		85.4
(-0.9)
A 		34.7
(-3)
A 		142
C 138.2
(1.4)
A 		146
(1.8)
A 		166.6
(3)
A 		108.9
(-0.2)
A 		59.8
(-3)
A 		67.7
(-2.6)
A 		107
avr 159.4
(3) 		140.6
(1.9) 		143.4
(2) 		104.1
(-0.4) 		65.7
(-2.7) 		60.7
(-3) 		99
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 52.8
(2.9)
A 		53.6
(3)
A 		40.8
(1)
A 		16
(-3)
A 		38
B 57.7
(3)
A 		40
(0.1)
A 		42.8
(0.6)
A 		20.5
(-3)
A 		37
C 64.7
(1.5)
A 		75.3
(3)
A 		37.2
(-2.3)
A 		32.1
(-3)
A 		43
avr 58.4
(3) 		56.3
(2.6) 		40.3
(-0.1) 		22.9
(-3) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 49
1 2 3 4 5 6 range
A 30.1
(0.1)
A 		43.3
(3)
A 		23.5
(-1.3)
A 		22.7
(-1.5)
A 		15.7
(-3)
A 		19.4
(-2.2)
A 		28
B 61.5
(3)
A 		51.3
(1.7)
A 		37.8
(0.1)
A 		30.1
(-0.9)
A 		34.7
(-0.3)
A 		12.9
(-3)
A 		49
C 51.2
(3)
A 		44.6
(1.8)
A 		42.4
(1.3)
A 		21.9
(-2.5)
A 		19.3
(-3)
A 		22.7
(-2.4)
A 		32
avr 47.6
(3) 		46.4
(2.8) 		34.6
(0.3) 		24.9
(-1.6) 		23.2
(-2) 		18.3
(-3) 		29
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192706_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17452
Sequence Type Exemplar sequence
Representative Public ID C40C9.1 NCBI
Target Description C40C9.1 /REP_DB=WormBase Gene ID /WP=CE24839 /GEN=twk-4 /TR=O76790 /GB=CAB61045.1 /SUBMIT=HINXTON /CHR=X /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_077883(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077883 NCBI Caenorhabditis elegans TWiK family of potassium channels family member (twk-20) (twk-20) mRNA, complete cds. 11/11 None
SNAP00000030574 ENSEMBL cdna:SNAP chromosome:CEL140:X:13639796:13642141:1 10/11 None
GENEFINDER00000030579 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:13639796:13642141:1 10/11 None
C40C9.1 ENSEMBL cdna:known chromosome:CEL140:X:13639796:13642175:1 gene:C40C9.1 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
chrX:13639795-13642175(+) 100.0 100.0
Public Domain and Genome References
Gene Title potassium channel protein
Gene Symbol twk-20
Ensembl C40C9.1
Entrez Gene 181485 Entrez gene
SwissProt O76790 EMBL-EBI
WormBase CE24839 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
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
5267 potassium channel activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB61045 Hypothetical protein C40C9.1 [Caenorhabditis elegans] ref|NP_510284.1| TWiK family of potassium channels family member (twk-20) [Caenorhabditis elegans] gb|AAC32857.1| putative potassium channel subunit n2P20 [Caenorhabditis elegans] 0.0
blast CAE63106 Hypothetical protein CBG07401 [Caenorhabditis briggsae] 0.0
blast T19860 hypothetical protein C40C9.1 - Caenorhabditis elegans 0.0
blast T19860 hypothetical protein C40C9.1 - Caenorhabditis elegans 1.0E-165
blast CAB61045 Hypothetical protein C40C9.1 [Caenorhabditis elegans] ref|NP_510284.1| TWiK family of potassium channels family member (twk-20) [Caenorhabditis elegans] gb|AAC32857.1| putative potassium channel subunit n2P20 [Caenorhabditis elegans] 1.0E-165
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510284.1 6 12-29,81-103,110-132,161-183,196-218,228-250
C40C9.1 6 12-29,81-103,110-132,161-183,196-218,228-250
SNAP00000030574 6 12-29,81-103,110-132,161-183,196-218,228-250
GENEFINDER00000030579 6 12-29,81-103,110-132,161-183,196-218,228-250
Sequence
Target Sequence 
>C. ELEGANS:192706_AT
aagaggtcacacctacacatcttcttatggtttcactgacaataggttttatggttatcg
tatcaggaacctatatgtttcatacaatagagaaatggtcgatatttgatgcctactact
tctgtatgatcaccttctccacaattgggttcggggaccttgtgcccttacagcaagtaa
atgcactacaagatcaaccactctacgtattcgcaactatcatgttcatattgataggac
tcgctgtattctccgcttgtgtcaatttattagtattaggattcatggcatcaaatgcgg
atgaagttacggcagcacaacgagaaccacctagtgcaatagtcttagagagattcacca
gaaattcgttggtggactcacagattttcaatatccaaaaacatagtacagttggagtgc
tcccaggacggcctaggcgaatgtactcaattgttccaaactctacagccgatgtacacc
tccgacggagatctaccagaaggagcatccaggacactgtctgctgtggatgtttcaaac
caaggccaccaaggcatcggttttcacttactcgaaggcctact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGAGGTCACACCTACACATCTTCT 15 155 488 Antisense
GATATTTGATGCCTACTACTTCTGT 344 427 588 Antisense
GATCACCTTCTCCACAATTGGGTTC 511 421 615 Antisense
GACCTTGTGCCCTTACAGCAAGTAA 363 383 643 Antisense
ATCAACCACTCTACGTATTCGCAAC 204 27 680 Antisense
GTATTCTCCGCTTGTGTCAATTTAT 302 453 733 Antisense
ACAGTTGGAGTGCTCCCAGGACGGC 199 107 895 Antisense
GACGGCCTAGGCGAATGTACTCAAT 248 375 914 Antisense
AGCATCCAGGACACTGTCTGCTGTG 71 79 991 Antisense
CAAGGCCACCAAGGCATCGGTTTTC 239 169 1028 Antisense
GTTTTCACTTACTCGAAGGCCTACT 630 447 1047 Antisense
Sequence Source Affymetrix Proprietary Database