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[173476_s_at] chloride channel protein

Description g6467500 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=C07H4.2 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=C07H4.2 /WP=CE27360 /CHR=2 /FEA=Genomic Cluster /GEN=ceclc-5; clh-5 /DEF=CLC chloride channel protein; chloride channel protein
Cluster 6grp_highest_10_10 > 61      6grp_high1_10_10 > 16      4grp_highest_8_8 > 27      4grp_high_8_8 > 56      6grp_highest_nonorm > 41      6grp_total > 16      4grp_total > 63      6grp_highest_sub > De      6grp_cgc > 13      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 454
1 2 3 4 range
A 916.8
(3)
P 		674.5
(-2.6)
P 		840
(1.2)
P 		657.7
(-3)
P 		259
B 934.3
(3)
P 		724.5
(-3)
P 		815.8
(-0.4)
P 		746.3
(-2.4)
P 		210
C 789.5
(-2.9)
P 		815.2
(-2.5)
P 		1111.3
(3)
P 		786.7
(-3)
P 		325
avr 880.2
(1.7) 		738.1
(-2.8) 		922.4
(3) 		730.2
(-3) 		192

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 555
1 2 3 4 5 6 range
A 949.7
(3)
P 		811.8
(0.8)
P 		584.3
(-2.9)
P 		579.3
(-3)
P 		784.2
(0.3)
P 		702.3
(-1)
P 		370
B 1092.4
(3)
P 		725.4
(-1)
P 		577.3
(-2.6)
P 		733.6
(-0.9)
P 		537
(-3)
P 		708.5
(-1.1)
P 		555
C 623
(-2.2)
P 		867.1
(3)
P 		776.7
(1.1)
P 		720.5
(-0.1)
P 		582.8
(-3)
P 		616.8
(-2.3)
P 		284
avr 888.4
(3) 		801.4
(0.9) 		646.1
(-2.7) 		677.8
(-2) 		634.7
(-3) 		675.9
(-2) 		254
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 291
1 2 3 4 range
A 333.8
(3)
P 		146.4
(-1.7)
P 		219.6
(0.1)
P 		96.3
(-3)
P 		238
B 297.9
(3)
P 		178.9
(-2.1)
P 		189
(-1.7)
P 		159
(-3)
P 		139
C 261.3
(0)
P 		234.4
(-0.6)
P 		387.3
(3)
P 		132.7
(-3)
P 		255
avr 297.7
(3) 		186.6
(-1) 		265.3
(1.8) 		129.3
(-3) 		168

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 253
1 2 3 4 5 6 range
A 175.1
(-1.2)
P 		288.7
(3)
P 		127.2
(-3)
P 		146.9
(-2.3)
P 		236.6
(1.1)
P 		171
(-1.4)
P 		162
B 380.1
(3)
P 		241.5
(-0.5)
P 		140.2
(-3)
P 		194.3
(-1.6)
P 		218.2
(-1)
P 		264.2
(0.1)
P 		240
C 230.9
(1.3)
P 		264.6
(3)
P 		197.7
(-0.4)
P 		144.9
(-3)
P 		188.6
(-0.8)
P 		206.5
(0.1)
P 		120
avr 262
(2.8) 		264.9
(3) 		155
(-3) 		162
(-2.6) 		214.5
(0.2) 		213.9
(0.2) 		110
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173476_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23459
Sequence Type Exemplar sequence
Representative Public ID 6467500 NCBI
Target Description g6467500 /REP_DB=GenBank Identifier /5_PRIME_EXT_ID=C07H4.2 /5_PRIME_EXT_DB=WormBase Gene ID /WB_GENE_ID=C07H4.2 /WP=CE27360 /CHR=2 /FEA=Genomic Cluster /GEN=ceclc-5; clh-5 /DEF=CLC chloride channel protein; chloride channel protein
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_063539(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063539 NCBI Caenorhabditis elegans CLC-type chloride cHannel family member (clh-5) (clh-5) mRNA, complete cds. 11/11 A 
C07H4.2.1 ENSEMBL cdna:known chromosome:CEL140:II:9094513:9098506:-1 gene:C07H4.2 11/11 A 
C07H4.2.2 ENSEMBL cdna:known chromosome:CEL140:II:9094619:9098512:-1 gene:C07H4.2 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:9094687-9098257(-) 98.68 100.0
Public Domain and Genome References
Gene Title chloride channel protein
Gene Symbol clh-5
Ensembl C07H4.2
Entrez Gene 174449 Entrez gene
SwissProt Q17804 EMBL-EBI
WormBase CE27360 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1603763_S_AT similar to Chloride channel protein 4 (ClC-4) cfa
CANINE:1602915_AT similar to Chloride channel protein 4 (ClC-4) cfa
CANINE:1588039_S_AT similar to Chloride channel protein 4 (ClC-4) cfa
CANINE_2:CFA.2863.1.A1_AT similar to Chloride channel protein 4 (ClC-4) cfa
CANINE_2:CFAAFFX.17965.1.S1_S_AT similar to Chloride channel protein 4 (ClC-4) cfa
CHICKEN:GGAAFFX.10629.1.S1_AT similar to Chloride channel protein 4 (ClC-4) gga
CHICKEN:GGAAFFX.10629.2.S1_S_AT similar to Chloride channel protein 4 (ClC-4) gga
HG-U133A:205149_S_AT chloride channel 4 hs
HG-U133_PLUS_2:205149_S_AT chloride channel 4 hs
HG-U133A_2:205149_S_AT chloride channel 4 hs
HG-U133_PLUS_2:205148_S_AT chloride channel 4 hs
HG-U133A_2:205148_S_AT chloride channel 4 hs
HG-FOCUS:205148_S_AT chloride channel 4 hs
HG-U133A:205148_S_AT chloride channel 4 hs
HUGENEFL:X77197_AT chloride channel 4 hs
U133_X3P:G11641404_3P_A_AT chloride channel 4 hs
U133_X3P:HS.199250.0.A2_3P_A_AT chloride channel 4 hs
HG-U95AV2:40965_AT chloride channel 4 hs
HG-U133_PLUS_2:217556_AT Chloride channel 4 hs
HG-U133A_2:217556_AT Chloride channel 4 hs
HG-U133A:217556_AT Chloride channel 4 hs
HU35KSUBB:RC_T17179_AT Chloride channel 4 hs
U133_X3P:HS.6932.0.S1_3P_AT Chloride channel 4 hs
U133_X3P:HS.293838.0.A1_3P_AT Chloride channel 4 hs
HG-U133A_2:214769_AT Chloride channel 4 hs
HG-U133_PLUS_2:214769_AT Chloride channel 4 hs
HG-U133A:214769_AT Chloride channel 4 hs
HG-U95AV2:40335_AT Chloride channel 4 hs
HG-U133_PLUS_2:231066_S_AT Chloride channel 4 hs
HG-U133B:231066_S_AT Chloride channel 4 hs
HU35KSUBA:W92283_AT Chloride channel 4 hs
U133_X3P:HS.199250.1.A1_3P_AT Chloride channel 4 hs
MOE430A:1415986_AT chloride channel 4-2 mm
MOUSE430A_2:1415986_AT chloride channel 4-2 mm
MOUSE430_2:1415986_AT chloride channel 4-2 mm
MOE430A:1448161_A_AT chloride channel 4-2 mm
MOUSE430_2:1448161_A_AT chloride channel 4-2 mm
MOUSE430A_2:1448161_A_AT chloride channel 4-2 mm
MU11KSUBA:AA276848_AT chloride channel 4-2 mm
MU11KSUBB:Z49916_S_AT chloride channel 4-2 mm
MG-U74AV2:104704_AT chloride channel 4-2 mm
MG-U74AV2:99672_AT chloride channel 4-2 mm
MU19KSUBB:TC32188_AT Chloride channel 4-2, mRNA (cDNA clone MGC:6024 IMAGE:3586154) mm
RN-U34:Z36944CDS_AT putative chloride channel (similar to Mm Clcn4-2) rn
RG-U34A:Z36944CDS_AT putative chloride channel (similar to Mm Clcn4-2) rn
RAE230A:1369791_AT putative chloride channel (similar to Mm Clcn4-2) rn
RAT230_2:1369791_AT putative chloride channel (similar to Mm Clcn4-2) rn
RAE230B:1379932_AT Putative chloride channel (similar to Mm Clcn4-2) rn
RAT230_2:1379932_AT Putative chloride channel (similar to Mm Clcn4-2) rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6821 chloride 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
5247 voltage-gated chloride channel activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA92728 Hypothetical protein C07H4.2 [Caenorhabditis elegans] emb|CAA90949.2| Hypothetical protein C07H4.2 [Caenorhabditis elegans] ref|NP_495940.1| CLC-type chloride cHannel family member (clh-5) [Caenorhabditis elegans] dbj|BAA86959.1| clc chloride channel homologue [Caenorhabditis elegans] 0.0
blast AAF13167 CLC chloride channel protein [Caenorhabditis elegans] 0.0
blast CAE59800 Hypothetical protein CBG03262 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000644 EMBL-EBI CBS domain 9.0E-8
Pfam IPR000644 EMBL-EBI CBS domain 5.9E-11
Pfam IPR001807 EMBL-EBI Cl- channel, voltage gated 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495940.1 11 114-136,193-215,236-258,269-286,299-321,336-353,373-395,415-434,468-490,541-558,563-585
C07H4.2.1 11 114-136,193-215,236-258,269-286,299-321,336-353,373-395,415-434,468-490,541-558,563-585
C07H4.2.2 11 114-136,193-215,236-258,269-286,299-321,336-353,373-395,415-434,468-490,541-558,563-585
Sequence
Target Sequence 
>C. ELEGANS:173476_S_AT
aaaactcacaatagtcatttttctttctttctttttatttttcattctttcctgtcaaat
tgtacacttttctgcataacgttcttctccattttgctcattttcccacccatttccagt
caatttccaccagtttcactttccagccaaaaaacaaaactgtaaatgcttccctttaga
tttctataa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAACTCACAATAGTCATTTTTCTT 400 131 2208 Antisense
CAATAGTCATTTTTCTTTCTTTCTT 361 181 2216 Antisense
ATTTTTCATTCTTTCCTGTCAAATT 358 15 2244 Antisense
TTCATTCTTTCCTGTCAAATTGTAC 233 687 2248 Antisense
TCTTTCCTGTCAAATTGTACACTTT 637 615 2253 Antisense
TGTACACTTTTCTGCATAACGTTCT 452 559 2268 Antisense
CACTTTTCTGCATAACGTTCTTCTC 354 197 2272 Antisense
CAGTCAATTTCCACCAGTTTCACTT 506 203 2324 Antisense
CAAAACTGTAAATGCTTCCCTTTAG 376 189 2362 Antisense
GTAAATGCTTCCCTTTAGATTTCTA 400 461 2369 Antisense
AATGCTTCCCTTTAGATTTCTATAA 37 167 2372 Antisense
Sequence Source GenBank