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[184002_at]

Description C09F12.1 /REP_DB=WormBase Gene ID /WP=CE08040 /TR=Q93198 /GB=CAB01719.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 28      6grp_high1_10_10 > 82      4grp_highest_8_8 > 26      4grp_high_8_8 > 59      6grp_highest_nonorm > 55      6grp_total > 81      4grp_total > 60      6grp_highest_sub > 04      6grp_cgc > 86      6grp_high1_sub > 04      6grp_cgc_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 871
1 2 3 4 range
A 779
(0.2)
P 		739.1
(-0.1)
P 		1131.5
(3)
P 		373.9
(-3)
P 		758
B 889.2
(0.8)
P 		682.9
(-0.6)
P 		1202.8
(3)
P 		331.7
(-3)
P 		871
C 823.2
(2.2)
P 		629
(0.1)
P 		897.3
(3)
P 		343
(-3)
P 		554
avr 830.5
(1) 		683.7
(-0.2) 		1077.2
(3) 		349.5
(-3) 		728

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1908
1 2 3 4 5 6 range
A 1195.4
(-2.3)
P 		990.2
(-3)
P 		1880.1
(-0)
P 		2800.1
(3)
P 		2074.6
(0.6)
P 		1195.3
(-2.3)
P 		1810
B 892.4
(-3)
P 		1058.2
(-2.4)
P 		1693
(-0.3)
P 		2659.9
(3)
P 		2235.6
(1.6)
P 		1240.6
(-1.8)
P 		1768
C 1065.4
(-3)
P 		1162.5
(-2.6)
P 		1710.6
(-0.5)
P 		2638.9
(3)
P 		1940.6
(0.3)
P 		1351.7
(-1.9)
P 		1574
avr 1051.1
(-3) 		1070.3
(-2.9) 		1761.2
(-0.4) 		2699.6
(3) 		2083.6
(0.8) 		1262.5
(-2.2) 		1649
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 258
1 2 3 4 range
A 283.6
(2.7)
P 		160.4
(-0.4)
P 		295.8
(3)
P 		54.7
(-3)
P 		241
B 283.6
(3)
P 		168.7
(-0.2)
P 		278.7
(2.9)
P 		70.7
(-3)
P 		213
C 272.5
(2.1)
P 		180.8
(-0.1)
P 		312.7
(3)
P 		57.8
(-3)
P 		255
avr 279.9
(2.6) 		170
(-0.2) 		295.7
(3) 		61.1
(-3) 		235

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 688
1 2 3 4 5 6 range
A 220.4
(-3)
P 		352.2
(-1.4)
P 		409.4
(-0.7)
P 		710.2
(3)
P 		626
(2)
P 		291
(-2.1)
P 		490
B 310.5
(-3)
P 		352.2
(-2.6)
P 		411.1
(-2)
P 		704.5
(1)
P 		908.3
(3)
P 		462.6
(-1.5)
P 		598
C 394.9
(-2.1)
P 		354.7
(-3)
P 		435.4
(-1.2)
P 		530.7
(0.9)
P 		628
(3)
P 		452.5
(-0.9)
P 		273
avr 308.6
(-3) 		353
(-2.4) 		418.6
(-1.4) 		648.5
(1.9) 		720.8
(3) 		402
(-1.6) 		412
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184002_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17264
Sequence Type Exemplar sequence
Representative Public ID C09F12.1 NCBI
Target Description C09F12.1 /REP_DB=WormBase Gene ID /WP=CE08040 /TR=Q93198 /GB=CAB01719.1 /SUBMIT=HINXTON /CHR=X /FEA=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_077446(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077446 NCBI Caenorhabditis elegans CLaudin-like in Caenorhabditis family member (clc-1) (clc-1) mRNA, complete cds. 11/11 A 
SNAP00000018792 ENSEMBL cdna:SNAP chromosome:CEL140:X:11048165:11049092:1 11/11 None
GENEFINDER00000018796 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:11048165:11049092:1 11/11 None
C09F12.1 ENSEMBL cdna:known chromosome:CEL140:X:11047468:11049104:1 gene:C09F12.1 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
chrX:11048164-11049092(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol clc-1
Ensembl C09F12.1
Entrez Gene 181293 Entrez gene
SwissProt Q93198 EMBL-EBI
WormBase CE08040 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB01719 Hypothetical protein C09F12.1 [Caenorhabditis elegans] ref|NP_509847.1| CLaudin-like in Caenorhabditis family member (clc-1) [Caenorhabditis elegans] 1.0E-105
blast CAE70762 Hypothetical protein CBG17511 [Caenorhabditis briggsae] 1.0E-88
blast CAE70823 Hypothetical protein CBG17594 [Caenorhabditis briggsae] 6.0E-28
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509847.1 4 9-31,80-102,115-137,152-174
C09F12.1 4 9-31,80-102,115-137,152-174
SNAP00000018792 4 9-31,80-102,115-137,152-174
GENEFINDER00000018796 4 9-31,80-102,115-137,152-174
Sequence
Target Sequence 
>C. ELEGANS:184002_AT
ggactcacccaaattctctatggacttattatggctggtagtgctattttaacagcagtt
gctttgtttacgccaagttggaatactgttgaaaataatgtgaaagatataactcatatc
aacacatctgaatggaatggcttgatgccttggtcatgtattggtcactctcagggaacc
cagtgtcaggattggtgggcgaatcttccaggatggatgaaatgtgtcgtcgtctgcatg
atcctctctttgattgtccaaatttttgcagttgtctacaactttttgacatgccttgcc
tgctgctgcaagaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGACTCACCCAAATTCTCTATGGAC 34 525 25 Antisense
TTCTCTATGGACTTATTATGGCTGG 360 691 38 Antisense
GCAGTTGCTTTGTTTACGCCAAGTT 481 311 79 Antisense
GGAATGGCTTGATGCCTTGGTCATG 72 533 158 Antisense
CTTGGTCATGTATTGGTCACTCTCA 8 219 173 Antisense
GTCACTCTCAGGGAACCCAGTGTCA 321 463 188 Antisense
GGTGGGCGAATCTTCCAGGATGGAT 302 499 218 Antisense
GAAATGTGTCGTCGTCTGCATGATC 20 361 243 Antisense
ATGATCCTCTCTTTGATTGTCCAAA 244 47 262 Antisense
GTCCAAATTTTTGCAGTTGTCTACA 272 475 280 Antisense
ATGCCTTGCCTGCTGCTGCAAGAAA 225 41 315 Antisense
Sequence Source Affymetrix Proprietary Database