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[172912_x_at]

Description T27D12.2 /REP_DB=WormBase Gene ID /WP=CE06517 /CHR=2 /FEA=Sanger Annotation /DEF=locus:clh-1 chloride channel protein (HINXTON) TR:Q22833 protein_id:CAA93879.1
Cluster 6grp_highest_10_10 > 98      6grp_high1_10_10 > 69      4grp_highest_8_8 > 31      4grp_high_8_8 > 13      6grp_highest_nonorm > 86      6grp_total > 89      4grp_total > 11      6grp_highest_sub > Cu      6grp_cgc > 29      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 994
1 2 3 4 range
A 1003.7
(-1.8)
P 		920
(-2.3)
P 		812.7
(-3)
P 		1772.6
(3)
P 		960
B 1002.1
(-1.8)
P 		1021.1
(-1.7)
P 		810.7
(-3)
P 		1804.9
(3)
P 		994
C 912.4
(-2.6)
P 		941
(-2.4)
P 		874.7
(-3)
P 		1486.7
(3)
P 		612
avr 972.7
(-2) 		960.7
(-2.1) 		832.7
(-3) 		1688.1
(3) 		855

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 544
1 2 3 4 5 6 range
A 1025.7
(0.8)
P 		959.7
(0)
P 		683.4
(-3)
P 		834.9
(-1.3)
P 		1021.1
(0.7)
P 		1227
(3)
P 		544
B 872.1
(-0.1)
P 		927.3
(1)
P 		724.2
(-3)
P 		888.1
(0.2)
P 		991.4
(2.2)
P 		1031.2
(3)
P 		307
C 884.2
(-1)
P 		840.9
(-1.7)
P 		901.4
(-0.7)
P 		765.7
(-3)
P 		1123.1
(3)
P 		1028.8
(1.4)
P 		357
avr 927.3
(-0.1) 		909.3
(-0.4) 		769.7
(-3) 		829.6
(-1.9) 		1045.2
(2.1) 		1095.7
(3) 		326
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 197
1 2 3 4 range
A 365.5
(3)
P 		199.7
(-3)
P 		212.4
(-2.5)
P 		259.5
(-0.8)
P 		166
B 319.5
(1)
P 		252.2
(-1)
P 		187.9
(-3)
P 		384.6
(3)
P 		197
C 302
(2.7)
P 		270.6
(-0.8)
P 		304.9
(3)
P 		250.7
(-3)
P 		54
avr 329
(3) 		240.8
(-2.6) 		235.1
(-3) 		298.3
(1) 		94

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 254
1 2 3 4 5 6 range
A 189.1
(-1.7)
P 		341.3
(3)
P 		148.8
(-3)
P 		211.8
(-1)
P 		308.1
(2)
P 		298.7
(1.7)
P 		193
B 303.4
(0.4)
P 		308.6
(0.5)
P 		175.9
(-3)
P 		235.2
(-1.4)
P 		402.8
(3)
P 		384.5
(2.5)
P 		227
C 327.7
(2)
P 		256.6
(-0.1)
P 		229.4
(-0.8)
P 		154
(-3)
P 		363.4
(3)
P 		344.4
(2.5)
P 		209
avr 273.4
(0.1) 		302.2
(1.1) 		184.7
(-3) 		200.3
(-2.5) 		358.1
(3) 		342.5
(2.5) 		173
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172912_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2606
Sequence Type Exemplar sequence
Representative Public ID T27D12.2 NCBI
Target Description T27D12.2 /REP_DB=WormBase Gene ID /WP=CE06517 /CHR=2 /FEA=Sanger Annotation /DEF=locus:clh-1 chloride channel protein (HINXTON) TR:Q22833 protein_id:CAA93879.1
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_001027203(10), NM_001027202(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027203 NCBI Caenorhabditis elegans CLC-type chloride cHannel family member (clh-1) (clh-1) mRNA, complete cds. 10/11 None
NM_001027202 NCBI Caenorhabditis elegans CLC-type chloride cHannel family member (clh-1) (clh-1) mRNA, complete cds. 11/11 None
SNAP00000038205 ENSEMBL cdna:SNAP chromosome:CEL140:II:11846764:11849319:-1 9/11 None
GENEFINDER00000038211 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11846764:11854647:-1 11/11 None
T27D12.2b ENSEMBL cdna:known chromosome:CEL140:II:11846413:11854648:-1 gene:T27D12.2 10/11 A 
T27D12.2a ENSEMBL cdna:known chromosome:CEL140:II:11846592:11854648:-1 gene:T27D12.2 11/11 A 
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:11846760-11852787(-) 98.54 100.0
Public Domain and Genome References
Ensembl T27D12.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAC42352 Hypothetical protein T27D12.2b [Caenorhabditis elegans] ref|NP_001022374.1| CLC-type chloride cHannel family member (clh-1) [Caenorhabditis elegans] dbj|BAA86913.1| CLH-1 [Caenorhabditis elegans] 0.0
blast CAA93879 Hypothetical protein T27D12.2a [Caenorhabditis elegans] ref|NP_001022373.1| CLC-type chloride cHannel family member (clh-1) [Caenorhabditis elegans] 0.0
blast AAF13163 CLC chloride channel protein [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000644 EMBL-EBI CBS domain 1.7E-4
Pfam IPR000644 EMBL-EBI CBS domain 0.0021
Pfam IPR001807 EMBL-EBI Cl- channel, voltage gated 1.0E-126
Pfam IPR000644 EMBL-EBI CBS domain 0.0021
Pfam IPR000644 EMBL-EBI CBS domain 1.7E-4
Pfam IPR000644 EMBL-EBI CBS domain 0.071
Pfam IPR001807 EMBL-EBI Cl- channel, voltage gated 2.0E-75
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001022374.1 10 120-142,163-185,276-298,324-346,361-380,401-423,473-495,502-524,539-561,568-590
NP_001022373.1 10 120-142,163-185,276-298,324-346,361-380,401-423,473-495,502-524,539-561,568-590
T27D12.2b 10 120-142,163-185,276-298,324-346,361-380,401-423,473-495,502-524,539-561,568-590
T27D12.2a 10 120-142,163-185,276-298,324-346,361-380,401-423,473-495,502-524,539-561,568-590
SNAP00000038205 5 20-42,93-115,122-144,159-181,188-210
GENEFINDER00000038211 10 120-142,163-185,276-298,324-346,361-380,401-423,473-495,502-524,539-561,568-590
Sequence
Target Sequence 
>C. ELEGANS:172912_X_AT
gaaagtattctagacgtggctcgctcgctgcgaatggtgctcacatgtcgtctggaaatg
cgttgatgactgacaggaatatctccggaaacactcttcttccacaatctccacttcatg
aagatcagggagatcgcagtccattggccccacttctgtacgctcagactaatcaacacg
agccgattgtgcactctttggcaaagagagctgaaattctatcaaagaaattggacatgg
aagaagtggcaatcgatccggcaccgttccagttggttagaggcacctctctttacaagg
tccacaccctgttctcccttcttgctctcaaccatgcctatgttactgaaaaaggtcgtc
tttgtggtgtagttgccgtgaaggaacttcgtgaggcgctcagtaacatctacagtagag
gagctgtcgtcccgaaacagagaatccgaacatccacattccgactcaatccagaacaag
atcttgaccgtgagctccaaaacggccatacagcggagccaaacggcgccccaatcagac
aaccacgtgtcacaatcgatgttcct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAAGTATTCTAGACGTGGCTCGCT 155 361 2078 Antisense
GCGAATGGTGCTCACATGTCGTCTG 215 289 2107 Antisense
TATCTCCGGAAACACTCTTCTTCCA 322 659 2157 Antisense
CAGGGAGATCGCAGTCCATTGGCCC 646 207 2203 Antisense
AACACGAGCCGATTGTGCACTCTTT 32 135 2252 Antisense
GGCACCGTTCCAGTTGGTTAGAGGC 483 523 2337 Antisense
AGAGGCACCTCTCTTTACAAGGTCC 59 39 2356 Antisense
TGCTCTCAACCATGCCTATGTTACT 187 581 2400 Antisense
GTGAGGCGCTCAGTAACATCTACAG 172 481 2468 Antisense
AGATCTTGACCGTGAGCTCCAAAAC 45 67 2556 Antisense
ACCACGTGTCACAATCGATGTTCCT 110 85 2619 Antisense
Sequence Source Affymetrix Proprietary Database