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[190880_at] potassium channel protein

Description F36A2.4 /REP_DB=WormBase Gene ID /WP=CE24949 /TR=P90863 /GB=CAB03071.2 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=potassium channel protein
Cluster 6grp_high1_10_10 > 33      6grp_total > 21      4grp_total > 54      6grp_cgc > 72      6grp_high1_sub > 02      6grp_cgc_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 136
1 2 3 4 range
A 176.5
(3)
P 		143.6
(0.3)
P 		126.3
(-1.2)
A 		104.1
(-3)
M 		72
B 189.1
(3)
P 		99
(-1)
P 		103.1
(-0.8)
P 		53.2
(-3)
A 		136
C 184.5
(3)
P 		110.5
(-1.1)
P 		106.3
(-1.4)
P 		76.7
(-3)
A 		108
avr 183.4
(3) 		117.7
(-0.7) 		111.9
(-1.1) 		78
(-3) 		105

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 207
1 2 3 4 5 6 range
A 184.1
(1.9)
P 		182.4
(1.9)
P 		207
(3)
P 		152.9
(0.5)
P 		136.9
(-0.2)
P 		76.5
(-3)
A 		131
B 121.1
(-1.2)
P 		238.7
(3)
P 		215
(2.2)
P 		188.6
(1.2)
P 		105.2
(-1.8)
P 		70.7
(-3)
P 		168
C 100.5
(-2.1)
P 		277.1
(3)
P 		177.8
(0.1)
P 		137.9
(-1)
P 		69.8
(-3)
A 		108.9
(-1.9)
A 		207
avr 135.2
(-1) 		232.7
(3) 		199.9
(1.7) 		159.8
(0) 		104
(-2.2) 		85.4
(-3) 		147
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 53
1 2 3 4 range
A 64.2
(3)
P 		31.2
(-1)
P 		33
(-0.8)
A 		15.2
(-3)
M 		49
B 60.3
(3)
P 		24.4
(-1.4)
P 		23.9
(-1.5)
P 		11.3
(-3)
A 		49
C 61.1
(3)
P 		31.8
(-0.6)
P 		37.1
(0)
P 		12.9
(-3)
A 		48
avr 61.9
(3) 		29.1
(-1) 		31.3
(-0.8) 		13.1
(-3) 		49

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 66
1 2 3 4 5 6 range
A 33.9
(-1)
P 		64.9
(3)
P 		45.1
(0.4)
P 		38.8
(-0.4)
P 		41.3
(-0.1)
P 		18.6
(-3)
A 		46
B 42.2
(-1.2)
P 		79.5
(3)
P 		52.2
(-0.1)
P 		50
(-0.3)
P 		42.7
(-1.2)
P 		26.4
(-3)
P 		53
C 37.3
(-1.6)
P 		84.5
(3)
P 		45.2
(-0.8)
P 		27.7
(-2.5)
P 		22.6
(-3)
A 		36.4
(-1.7)
A 		62
avr 37.8
(-1.7) 		76.3
(3) 		47.5
(-0.5) 		38.8
(-1.6) 		35.5
(-2) 		27.1
(-3) 		49
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190880_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1964
Sequence Type Exemplar sequence
Representative Public ID F36A2.4 NCBI
Target Description F36A2.4 /REP_DB=WormBase Gene ID /WP=CE24949 /TR=P90863 /GB=CAB03071.2 /SUBMIT=HINXTON /CHR=1 /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_059980(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059980 NCBI Caenorhabditis elegans TWiK family of potassium channels family member (twk-30) (twk-30) mRNA, complete cds. 11/11 None
SNAP00000004922 ENSEMBL cdna:SNAP chromosome:CEL140:I:8817131:8819757:-1 11/11 None
GENEFINDER00000004946 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8817131:8819757:-1 11/11 None
F36A2.4 ENSEMBL cdna:known chromosome:CEL140:I:8817117:8819787:-1 gene:F36A2.4 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
chrI:8817061-8819718(-) 100.0 100.0
Public Domain and Genome References
Gene Title potassium channel protein
Gene Symbol twk-30
Ensembl F36A2.4
Entrez Gene 185335 Entrez gene
SwissProt P90863 EMBL-EBI
WormBase CE34182 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 CAB03071 Hypothetical protein F36A2.4 [Caenorhabditis elegans] ref|NP_492381.2| TWiK family of potassium channels family member (twk-30) [Caenorhabditis elegans] 0.0
blast CAE66977 Hypothetical protein CBG12373 [Caenorhabditis briggsae] 0.0
blast CAB07286 Hypothetical protein T28A8.1 [Caenorhabditis elegans] ref|NP_499790.1| TWiK family of potassium channels family member (twk-40) [Caenorhabditis elegans] 1.0E-40
Protein Domains
Database ID Description E-Value
Pfam IPR003961 EMBL-EBI Fibronectin, type III 4.6E-11
Pfam IPR003961 EMBL-EBI Fibronectin, type III 6.8E-5
Pfam IPR003961 EMBL-EBI Fibronectin, type III 4.6E-11
Pfam IPR003961 EMBL-EBI Fibronectin, type III 6.8E-5
Pfam IPR003961 EMBL-EBI Fibronectin, type III 4.6E-11
Pfam IPR003961 EMBL-EBI Fibronectin, type III 6.8E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492381.2 6 17-39,120-142,149-171,225-247,254-271,281-303
F36A2.4 6 17-39,120-142,149-171,225-247,254-271,281-303
SNAP00000004922 5 7-29,77-99,106-128,181-203,210-232
GENEFINDER00000004946 6 7-29,146-168,175-197,251-273,280-297,307-329
Sequence
Target Sequence 
>C. ELEGANS:190880_AT
cattttctcctgatccagacttgacttacaacattcgttatagattgaaacacaacgaag
atgcaaaagtacgcgagcttcgtggaattaaagggaatacagttgaaattatgagcgttg
attcatgttccctttatgaattccgaataactgctcataataaattcggtgaaagtaaag
ctgtgtacttggtacagtatacggaacctcagttgagtcctcaacatattttggcaacac
gattaaatgcgaatactattgagctgacatgggagccaccatacaaaaaatcacatgaag
ttaagaattacgtggtttactttacggaaaatccgaatgcgtcgttatcagaatgggaga
aaattccagtaaatggaagacgggtggtcttccctgatcttcgattcgactggttctaca
tgtttagcgctacggcagttttcaaagatggacagagatctccattatctcgtgcactat
ttatcaaaactgacaagatagaatttcacaagcattgcgttggccattcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CATTTTCTCCTGATCCAGACTTGAC 301 215 1355 Antisense
TGAGCGTTGATTCATGTTCCCTTTA 273 569 1466 Antisense
ACGGAACCTCAGTTGAGTCCTCAAC 202 95 1555 Antisense
GAGTCCTCAACATATTTTGGCAACA 488 399 1569 Antisense
GAGCTGACATGGGAGCCACCATACA 319 385 1615 Antisense
GAAGACGGGTGGTCTTCCCTGATCT 329 337 1730 Antisense
TTCCCTGATCTTCGATTCGACTGGT 184 699 1744 Antisense
GACTGGTTCTACATGTTTAGCGCTA 695 375 1762 Antisense
GTTTAGCGCTACGGCAGTTTTCAAA 276 447 1776 Antisense
TCTCCATTATCTCGTGCACTATTTA 478 609 1813 Antisense
CACAAGCATTGCGTTGGCCATTCAA 116 195 1861 Antisense
Sequence Source Affymetrix Proprietary Database