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[192987_at]

Description E04F6.11 /REP_DB=WormBase Gene ID /WP=CE01212 /CHR=2 /FEA=Sanger Annotation /DEF=locus:clh-3 Chloride channel protein (ST.LOUIS) TR:Q19067 protein_id:AAA68367.1
Cluster 6grp_highest_10_10 > 86      6grp_high1_10_10 > 77      4grp_highest_8_8 > 15      4grp_high_8_8 > 14      6grp_highest_nonorm > 90      6grp_total > 68      4grp_total > 09      6grp_highest_sub > Da      6grp_cgc > 48      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 198
1 2 3 4 range
A 134
(-3)
P 		134.8
(-3)
P 		161.4
(-1.9)
P 		281.9
(3)
P 		148
B 105.2
(-3)
P 		189.5
(-0.4)
P 		156.9
(-1.4)
P 		302.8
(3)
P 		198
C 127.1
(-2.3)
P 		111.5
(-3)
P 		113.3
(-2.9)
P 		239.9
(3)
P 		128
avr 122.1
(-3) 		145.3
(-2.1) 		143.9
(-2.1) 		274.9
(3) 		153

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 181
1 2 3 4 5 6 range
A 170.5
(-0.9)
P 		137
(-2)
P 		108
(-3)
P 		136
(-2.1)
P 		197.6
(0)
P 		285.7
(3)
P 		178
B 138.9
(-0.9)
P 		151.9
(-0.2)
P 		189.5
(2.1)
P 		105
(-3)
P 		104.6
(-3)
P 		204.4
(3)
P 		100
C 129.5
(-1.9)
P 		138.2
(-1.5)
P 		105.5
(-3)
P 		178.2
(0.3)
P 		143.3
(-1.3)
P 		238.5
(3)
P 		133
avr 146.3
(-2.3) 		142.4
(-2.6) 		134.3
(-3) 		139.7
(-2.7) 		148.5
(-2.2) 		242.9
(3) 		109
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 35
1 2 3 4 range
A 48.8
(3)
P 		29.3
(-3)
P 		42.2
(1)
P 		41.3
(0.7)
P 		20
B 33.6
(-3)
P 		46.8
(-0.4)
P 		36.3
(-2.5)
P 		64.5
(3)
P 		31
C 42.1
(3)
P 		32.1
(-3)
P 		39.5
(1.4)
P 		40.4
(2)
P 		10
avr 41.5
(-0.4) 		36.1
(-3) 		39.3
(-1.5) 		48.7
(3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 56
1 2 3 4 5 6 range
A 31.4
(-2)
P 		48.7
(0.3)
P 		23.5
(-3)
P 		34.5
(-1.6)
P 		59.6
(1.7)
P 		69.5
(3)
P 		46
B 48.3
(-0.5)
P 		50.6
(-0.2)
P 		46
(-0.7)
P 		27.8
(-3)
P 		42.5
(-1.2)
P 		76.2
(3)
P 		48
C 48
(-0.6)
P 		42.2
(-1.3)
P 		26.9
(-3)
P 		35.8
(-2)
P 		46.4
(-0.8)
P 		79.8
(3)
P 		53
avr 42.6
(-1.5) 		47.2
(-0.9) 		32.1
(-3) 		32.7
(-2.9) 		49.5
(-0.6) 		75.2
(3) 		43
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192987_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4163
Sequence Type Exemplar sequence
Representative Public ID E04F6.11 NCBI
Target Description E04F6.11 /REP_DB=WormBase Gene ID /WP=CE01212 /CHR=2 /FEA=Sanger Annotation /DEF=locus:clh-3 Chloride channel protein (ST.LOUIS) TR:Q19067 protein_id:AAA68367.1
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_001026889(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026889 NCBI Caenorhabditis elegans CLC-type chloride cHannel family member (clh-3) (clh-3) mRNA, complete cds. 11/11 None
E04F6.11a ENSEMBL cdna:known chromosome:CEL140:II:7217886:7222985:-1 gene:E04F6.11 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
174187 2 1 NM_001026889 192987_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:7218451-7222479(-) 100.0 100.0
Public Domain and Genome References
Ensembl E04F6.11
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK68291 Clc-type chloride channel protein 3, isoform a [Caenorhabditis elegans] ref|NP_001022060.1| CLC-type chloride cHannel family member (clh-3) [Caenorhabditis elegans] gb|AAG49524.1| CLC-type chloride channel CLH-3b [Caenorhabditis elegans] 0.0
blast T15915 hypothetical protein E04F6.11 - Caenorhabditis elegans 0.0
blast AAK68292 Clc-type chloride channel protein 3, isoform b [Caenorhabditis elegans] ref|NP_001022061.1| CLC-type chloride cHannel family member (clh-3) [Caenorhabditis elegans] gb|AAF13165.1| CLC chloride channel protein [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000644 EMBL-EBI CBS domain 4.8E-6
Pfam IPR000644 EMBL-EBI CBS domain 2.4E-5
Pfam IPR001807 EMBL-EBI Cl- channel, voltage gated 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001022060.1 9 52-74,94-116,202-224,283-305,326-348,406-428,433-455,475-497,504-526
E04F6.11a 9 52-74,94-116,202-224,283-305,326-348,406-428,433-455,475-497,504-526
Sequence
Target Sequence 
>C. ELEGANS:192987_AT
agagctccgacttgcaattgaatatttacaatctggaaaagtgccaacacctggtatgag
cattttcaatgagcctccaacggaacaatcgatttatgagaaaagtgcaagactagaatc
aggacgagcaacaggcgatgcgcagaatgcagcctttgtgacagacaatggggaagatga
tgctcaaaatgattatattcaaccacctctagaagtggtaagacgaggggcgttaacccc
gaaccgaatgagcgaattgacaagattggagaatgtgagaacaacaccagaatcaccaca
tttcgaagttagttcaccatcgacgagctcatcgtgtgtgagcatagatttctcaccatt
ggatgcagcgaattcggaaaatggaagtgttggaggacttgtattgaatgtaccctcctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGAGCTCCGACTTGCAATTGAATAT 527 69 2415 Antisense
AAGTGCCAACACCTGGTATGAGCAT 327 159 2453 Antisense
GAGCATTTTCAATGAGCCTCCAACG 491 389 2472 Antisense
GGACGAGCAACAGGCGATGCGCAGA 492 523 2536 Antisense
GCGCAGAATGCAGCCTTTGTGACAG 51 289 2554 Antisense
ATGATTATATTCAACCACCTCTAGA 63 47 2603 Antisense
TTAACCCCGAACCGAATGAGCGAAT 693 681 2647 Antisense
ACAACACCAGAATCACCACATTTCG 290 113 2695 Antisense
GAAGTTAGTTCACCATCGACGAGCT 260 337 2719 Antisense
GATTTCTCACCATTGGATGCAGCGA 525 427 2761 Antisense
GACTTGTATTGAATGTACCCTCCTT 307 371 2810 Antisense
Sequence Source Affymetrix Proprietary Database