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[192675_s_at]

Description B0491.8 /REP_DB=WormBase Gene ID /WP=CE20461 /CHR=2 /FEA=Sanger Annotation /DEF=locus:clh-2 chloride channel protein (HINXTON) TR:Q18368 protein_id:CAA88325.1
Cluster 6grp_highest_10_10 > 60      6grp_high1_10_10 > 17      4grp_high_8_8 > 26      6grp_highest_nonorm > 80      6grp_total > 07      4grp_total > 37      6grp_highest_sub > De      6grp_cgc > 12      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 354
1 2 3 4 range
A 465.2
(3)
P 		367.7
(1)
P 		178.6
(-3)
A 		262.9
(-1.2)
P 		287
B 428.2
(3)
P 		273.9
(0.1)
P 		111.5
(-3)
P 		270.4
(0)
P 		317
C 459.9
(3)
P 		306.4
(-0.7)
P 		210.5
(-3)
P 		323.6
(-0.3)
P 		249
avr 451.1
(3) 		316
(0.1) 		166.9
(-3) 		285.6
(-0.5) 		284

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 232
1 2 3 4 5 6 range
A 358.4
(3)
P 		288.6
(1.2)
P 		126.3
(-3)
P 		191.5
(-1.3)
P 		205.9
(-0.9)
P 		192.9
(-1.3)
P 		232
B 312.1
(3)
P 		226.4
(-0.7)
P 		208.3
(-1.5)
P 		177.9
(-2.8)
P 		176.7
(-2.9)
P 		173.5
(-3)
P 		139
C 317.5
(3)
P 		197.8
(-1.9)
P 		247.4
(0.1)
P 		188
(-2.3)
P 		170.4
(-3)
P 		178.6
(-2.7)
P 		147
avr 329.3
(3) 		237.6
(-0.7) 		194
(-2.5) 		185.8
(-2.8) 		184.3
(-2.9) 		181.7
(-3) 		148
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 144
1 2 3 4 range
A 169.4
(3)
P 		79.8
(-1.1)
P 		46.7
(-2.6)
A 		38.5
(-3)
P 		131
B 136.6
(3)
P 		67.6
(-0.7)
P 		25.8
(-3)
P 		57.6
(-1.3)
P 		111
C 152.2
(3)
P 		88.1
(-0.9)
P 		73.4
(-1.8)
P 		54.6
(-3)
P 		98
avr 152.7
(3) 		78.5
(-1.3) 		48.6
(-3) 		50.2
(-2.9) 		104

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 90
1 2 3 4 5 6 range
A 66.1
(0.1)
P 		102.7
(3)
P 		27.5
(-3)
P 		48.6
(-1.3)
P 		62.1
(-0.2)
P 		47
(-1.4)
P 		75
B 108.6
(3)
P 		75.3
(-0.2)
P 		50.6
(-2.7)
P 		47.1
(-3)
P 		71.8
(-0.6)
P 		64.7
(-1.3)
P 		62
C 117.7
(3)
P 		60.4
(-1.3)
P 		63
(-1.1)
P 		37.8
(-3)
P 		55.1
(-1.7)
P 		59.8
(-1.3)
P 		80
avr 97.5
(3) 		79.5
(1) 		47
(-2.7) 		44.5
(-3) 		63
(-0.9) 		57.2
(-1.6) 		53
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192675_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2816
Sequence Type Exemplar sequence
Representative Public ID B0491.8 NCBI
Target Description B0491.8 /REP_DB=WormBase Gene ID /WP=CE20461 /CHR=2 /FEA=Sanger Annotation /DEF=locus:clh-2 chloride channel protein (HINXTON) TR:Q18368 protein_id:CAA88325.1
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_001026728(11), NM_001026729(11), NM_001026730(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026728 NCBI Caenorhabditis elegans CLC-type chloride cHannel family member (clh-2) (clh-2) mRNA, complete cds. 11/11 None
NM_001026729 NCBI Caenorhabditis elegans CLC-type chloride cHannel family member (clh-2) (clh-2) mRNA, complete cds. 11/11 None
NM_001026730 NCBI Caenorhabditis elegans CLC-type chloride cHannel family member (clh-2) (clh-2) mRNA, complete cds. 11/11 None
SNAP00000020553 ENSEMBL cdna:SNAP chromosome:CEL140:II:11365789:11369856:1 11/11 None
GENEFINDER00000020563 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11365878:11369856:1 11/11 None
B0491.8a ENSEMBL cdna:known chromosome:CEL140:II:11358353:11370149:1 gene:B0491.8 11/11 A 
B0491.8b ENSEMBL cdna:known chromosome:CEL140:II:11358353:11369856:1 gene:B0491.8 11/11 A 
B0491.8c ENSEMBL cdna:known chromosome:CEL140:II:11365298:11370196:1 gene:B0491.8 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
chrII:11358349-11369853(+) 100.0 100.0
Public Domain and Genome References
Ensembl B0491.8
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA90092 Hypothetical protein B0491.8a [Caenorhabditis elegans] emb|CAA88325.1| Hypothetical protein B0491.8a [Caenorhabditis elegans] ref|NP_001021899.1| CLC-type chloride cHannel family member (clh-2) [Caenorhabditis elegans] gb|AAG49523.1| CLC-type chloride channel CLH-2b [Caenorhabditis elegans] 0.0
blast CAC42250 Hypothetical protein B0491.8b [Caenorhabditis elegans] emb|CAC42266.1| Hypothetical protein B0491.8b [Caenorhabditis elegans] ref|NP_001021900.1| CLC-type chloride cHannel family member (clh-2) [Caenorhabditis elegans] 0.0
blast CAE59522 Hypothetical protein CBG02916 [Caenorhabditis briggsae] 0.0
blast CAF31469 Hypothetical protein B0491.8c [Caenorhabditis elegans] emb|CAF31471.1| Hypothetical protein B0491.8c [Caenorhabditis elegans] ref|NP_001021901.1| CLC-type chloride cHannel family member (clh-2) [Caenorhabditis elegans] gb|AAF13164.1| CLC chloride channel protein [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000644 EMBL-EBI CBS domain 2.5E-4
Pfam IPR000644 EMBL-EBI CBS domain 5.7E-4
Pfam IPR001807 EMBL-EBI Cl- channel, voltage gated 1.0E-126
Pfam IPR000644 EMBL-EBI CBS domain 2.5E-4
Pfam IPR000644 EMBL-EBI CBS domain 5.7E-4
Pfam IPR001807 EMBL-EBI Cl- channel, voltage gated 1.0E-126
Pfam IPR000644 EMBL-EBI CBS domain 2.5E-4
Pfam IPR000644 EMBL-EBI CBS domain 5.7E-4
Pfam IPR001807 EMBL-EBI Cl- channel, voltage gated 1.0E-126
Pfam IPR000644 EMBL-EBI CBS domain 2.5E-4
Pfam IPR000644 EMBL-EBI CBS domain 5.7E-4
Pfam IPR001807 EMBL-EBI Cl- channel, voltage gated 1.0E-126
Pfam IPR000644 EMBL-EBI CBS domain 2.5E-4
Pfam IPR000644 EMBL-EBI CBS domain 5.7E-4
Pfam IPR001807 EMBL-EBI Cl- channel, voltage gated 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001021899.1 11 85-107,127-149,178-197,235-257,270-292,319-338,359-381,433-455,462-484,499-521,533-555
NP_001021900.1 11 85-107,127-149,178-197,235-257,270-292,319-338,359-381,428-450,457-479,494-516,528-550
NP_001021901.1 11 54-76,96-118,147-166,204-226,239-261,288-307,328-350,397-419,426-448,463-485,497-519
B0491.8a 11 85-107,127-149,178-197,235-257,270-292,319-338,359-381,433-455,462-484,499-521,533-555
B0491.8b 11 85-107,127-149,178-197,235-257,270-292,319-338,359-381,428-450,457-479,494-516,528-550
B0491.8c 11 54-76,96-118,147-166,204-226,239-261,288-307,328-350,397-419,426-448,463-485,497-519
SNAP00000020553 12 15-37,57-79,104-126,133-155,170-189,202-224,249-268,289-311,358-380,387-409,424-446,458-480
GENEFINDER00000020563 11 21-43,74-96,103-125,140-159,172-194,219-238,259-281,328-350,357-379,394-416,428-450
Sequence
Target Sequence 
>C. ELEGANS:192675_S_AT
tccagaaaccgctcgcagtgatgctccatccgatcaagtagaatttgtatcggaaagaac
aatctccggaaacactcttctctcaatatctcctctccattgcccgaataacatcccact
acaggcagttttcacgcgaccttcatcagcagatctttctaaaacagaaacgaatgccga
tattctactaaatcgaaacattgatctagatgaaattgcaattgacgctgcaccattcca
actggttttaggatcttctttatacaaagtgcacactttattttcactcctcggtctgtc
acacgcttatgtgacagattgcggaaagctggtgggggtcgttggattgaaagagctccg
cgacgcgatggccaatatctacgtacgaggagccgtagcaccagtgaaaccagaccgaaa
actaacgtctggaacattcctagacatgtcccatatgaacaaagacaaactactcaatac
acctcaaacacctccagccaatggtctatcgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCCAGAAACCGCTCGCAGTGATGCT 157 587 2085 Antisense
CGGAAACACTCTTCTCTCAATATCT 235 243 2151 Antisense
CCCGAATAACATCCCACTACAGGCA 586 259 2187 Antisense
ACTACAGGCAGTTTTCACGCGACCT 610 99 2202 Antisense
CGACCTTCATCAGCAGATCTTTCTA 502 251 2221 Antisense
CGCTGCACCATTCCAACTGGTTTTA 27 257 2310 Antisense
AGTGCACACTTTATTTTCACTCCTC 3 61 2352 Antisense
GCGACGCGATGGCCAATATCTACGT 559 289 2444 Antisense
ACGAGGAGCCGTAGCACCAGTGAAA 269 93 2469 Antisense
GGAACATTCCTAGACATGTCCCATA 513 529 2515 Antisense
CACCTCCAGCCAATGGTCTATCGAT 109 201 2573 Antisense
Sequence Source Affymetrix Proprietary Database