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[172048_x_at] chloride channel protein

Description g6505766 /REP_DB=GenBank Identifier /GB=AB035090.2 /PROTEIN_GB=BAA86959.1 /CHR=2 /FEA=Mapped Transcript /DEF=clc chloride channel homologue
Cluster 6grp_highest_10_10 > 60      6grp_high1_10_10 > 17      4grp_highest_8_8 > 34      4grp_high_8_8 > 57      6grp_highest_nonorm > 10      6grp_total > 06      4grp_total > 62      6grp_highest_sub > De      6grp_total_sub > Decrease      6grp_cgc > 12      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 621
1 2 3 4 range
A 1516.5
(3)
P 		1258.8
(-3)
P 		1421.7
(0.8)
P 		1276.8
(-2.6)
P 		258
B 1741.4
(3)
P 		1390.3
(-0.4)
P 		1571.4
(1.4)
P 		1120.7
(-3)
P 		621
C 1506.4
(0)
P 		1393.4
(-2)
P 		1674.1
(3)
P 		1336.4
(-3)
P 		338
avr 1588.1
(3) 		1347.5
(-1.2) 		1555.7
(2.4) 		1244.6
(-3) 		344

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 844
1 2 3 4 5 6 range
A 1730.9
(3)
P 		1584.5
(1.8)
P 		1233.2
(-1.1)
P 		1000.9
(-3)
P 		1393.1
(0.2)
P 		1230.9
(-1.1)
P 		730
B 1844.8
(3)
P 		1434.2
(-0.2)
P 		1064.4
(-3)
P 		1617.2
(1.3)
P 		1066.1
(-3)
P 		1258.2
(-1.5)
P 		780
C 1600.3
(3)
P 		1343.4
(0.3)
P 		1376.6
(0.6)
P 		1100.2
(-2.4)
P 		1254
(-0.7)
P 		1039.5
(-3)
P 		561
avr 1725.3
(3) 		1454
(0) 		1224.7
(-2.5) 		1239.4
(-2.3) 		1237.7
(-2.3) 		1176.2
(-3) 		549
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 397
1 2 3 4 range
A 552.1
(3)
P 		273.2
(-1.6)
P 		371.7
(0)
P 		186.9
(-3)
P 		365
B 555.3
(3)
P 		343.4
(-1)
P 		364.1
(-0.6)
P 		238.8
(-3)
P 		317
C 498.7
(1.6)
P 		400.6
(-0.1)
P 		583.5
(3)
P 		225.3
(-3)
P 		358
avr 535.4
(3) 		339.1
(-0.7) 		439.8
(1.2) 		217
(-3) 		318

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 421
1 2 3 4 5 6 range
A 319.1
(-1.7)
P 		563.5
(3)
P 		268.6
(-2.7)
P 		253.9
(-3)
P 		420.4
(0.2)
P 		299.7
(-2.1)
P 		310
B 641.9
(3)
P 		477.4
(0.4)
P 		258.5
(-3)
P 		428.3
(-0.3)
P 		433.1
(-0.3)
P 		469.2
(0.3)
P 		383
C 593.2
(3)
P 		409.9
(0)
P 		350.4
(-0.9)
P 		221.3
(-3)
P 		405.8
(-0)
P 		348
(-1)
P 		372
avr 518.1
(3) 		483.6
(2.1) 		292.5
(-3) 		301.2
(-2.8) 		419.8
(0.4) 		372.3
(-0.9) 		226
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172048_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19709
Sequence Type Exemplar sequence
Representative Public ID 6505766 NCBI
Target Description g6505766 /REP_DB=GenBank Identifier /GB=AB035090.2 /PROTEIN_GB=BAA86959.1 /CHR=2 /FEA=Mapped Transcript /DEF=clc chloride channel homologue
Cluster Evidence This cluster is supported by a Mapped Transcript.
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:9094615-9098509(-) 97.99 100.0
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:172048_X_AT
atattctcttggcattacacaccgctcgtaaaactcaaccatacgttgtcacaaactcaa
tcgcatatttctcggatggagtacctgatgcaatgcctggtggtcctgctccacttcgtt
taaggaaaatcttagatatggctccaatgacagtaacggatcaaactccaatggaaaccg
taatcgatatgttccgaaaacttggacttcgtcatgtgctggtcacgaaaaatggcaaag
ttctcggaatcataacgaaaaaagacattctacagttcatgcgcaacaaaaactcacaat
agtcatttttctttctttctttttatttttcattctttcctgtcaaattgtacacttttc
tgcataacgttcttctccattttgctcattttcccacccatttccagtcaatttccacca
gtttcactttccagccaaaaaacaaaactgtaaatgcttccctttagatttctataattt
tgttatctgagccgtatgtgcttcctattttccgtgcattcgactttacttgac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATATTCTCTTGGCATTACACACCGC 189 19 2111 Antisense
TACACACCGCTCGTAAAACTCAACC 641 641 2126 Antisense
ACCTGATGCAATGCCTGGTGGTCCT 294 87 2193 Antisense
GTCCTGCTCCACTTCGTTTAAGGAA 191 475 2213 Antisense
TTGGACTTCGTCATGTGCTGGTCAC 499 705 2312 Antisense
TTTATTTTTCATTCTTTCCTGTCAA 205 675 2432 Antisense
TGTACACTTTTCTGCATAACGTTCT 450 559 2459 Antisense
GCATAACGTTCTTCTCCATTTTGCT 110 307 2472 Antisense
CAGTCAATTTCCACCAGTTTCACTT 507 203 2515 Antisense
ATCTGAGCCGTATGTGCTTCCTATT 632 33 2595 Antisense
TTCCGTGCATTCGACTTTACTTGAC 583 695 2620 Antisense
Sequence Source GenBank