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[191402_at] chloride channel

Description R07B7.1 /REP_DB=WormBase Gene ID /WP=CE06263 /GEN=clh-6 /TR=Q21791 /GB=CAB00111.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=chloride channel
Cluster 6grp_high1_10_10 > 67      4grp_high_8_8 > 12      6grp_total > 68      4grp_total > 04      6grp_cgc > 39      6grp_high1_sub > Da      6grp_cgc_sub > Cu      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 164
1 2 3 4 range
A 82.5
(-3)
P 		101.3
(-2.2)
P 		104.9
(-2)
P 		219.9
(3)
P 		137
B 130.2
(1.8)
P 		60.3
(-3)
M 		63.5
(-2.8)
P 		147
(3)
P 		87
C 115.7
(-0.6)
P 		81.5
(-2)
P 		56.3
(-3)
P 		205.8
(3)
P 		150
avr 109.5
(-1.2) 		81
(-2.7) 		74.9
(-3) 		190.9
(3) 		116

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 69
1 2 3 4 5 6 range
A 131
(3)
P 		79.9
(-3)
P 		83.7
(-2.6)
P 		105.9
(0.1)
P 		101
(-0.5)
P 		109
(0.4)
P 		51
B 78.3
(-1.9)
P 		117.1
(1.4)
P 		65.9
(-3)
P 		106.8
(0.5)
P 		85
(-1.3)
P 		135.1
(3)
P 		69
C 74
(-3)
P 		93.8
(-0)
P 		86.1
(-1.2)
P 		94.8
(0.1)
A 		90.5
(-0.5)
P 		114.2
(3)
P 		40
avr 94.4
(-0.7) 		96.9
(-0.3) 		78.6
(-3) 		102.5
(0.5) 		92.2
(-1) 		119.4
(3) 		41
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 30
(1.7)
P 		22
(-3)
P 		27.4
(0.2)
P 		32.2
(3)
P 		10
B 41.5
(3)
P 		14.9
(-3)
M 		14.7
(-3)
P 		31.3
(0.7)
P 		27
C 38.3
(3)
P 		23.4
(-1.8)
P 		19.6
(-3)
P 		34.7
(1.8)
P 		19
avr 36.6
(3) 		20.1
(-3) 		20.6
(-2.8) 		32.7
(1.6) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 34
1 2 3 4 5 6 range
A 24.1
(-0.1)
P 		28.4
(2)
P 		18.2
(-3)
P 		26.9
(1.2)
P 		30.5
(3)
P 		26.5
(1)
P 		12
B 27.2
(-1)
P 		39
(1)
P 		16
(-3)
P 		28.3
(-0.9)
P 		34.5
(0.2)
P 		50.4
(3)
P 		34
C 27.4
(-0.4)
P 		28.6
(-0)
P 		21.9
(-2.1)
P 		19.1
(-3)
A 		29.3
(0.2)
P 		38.2
(3)
P 		19
avr 26.2
(-0.7) 		32
(1.1) 		18.7
(-3) 		24.8
(-1.1) 		31.4
(0.9) 		38.4
(3) 		20
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191402_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13938
Sequence Type Exemplar sequence
Representative Public ID R07B7.1 NCBI
Target Description R07B7.1 /REP_DB=WormBase Gene ID /WP=CE06263 /GEN=clh-6 /TR=Q21791 /GB=CAB00111.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=chloride channel
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_073621(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073621 NCBI Caenorhabditis elegans CLC-type chloride cHannel family member (clh-6) (clh-6) mRNA, complete cds. 11/11 None
SNAP00000027082 ENSEMBL cdna:SNAP chromosome:CEL140:V:12063091:12065956:-1 11/11 None
GENEFINDER00000027111 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12063091:12065956:-1 11/11 None
R07B7.1 ENSEMBL cdna:known chromosome:CEL140:V:12062822:12065956:-1 gene:R07B7.1 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
chrV:12063090-12065998(-) 100.0 100.0
Public Domain and Genome References
Gene Title chloride channel
Gene Symbol clh-6
Ensembl R07B7.1
Entrez Gene 179655 Entrez gene
SwissProt Q9BHB2 EMBL-EBI
WormBase CE29336 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1592181_AT similar to Chloride channel protein 7 (ClC-7) cfa
CANINE_2:CFAAFFX.29926.1.S1_AT similar to Chloride channel protein 7 (ClC-7) cfa
DROSGENOME1:147105_AT dm
DROSOPHILA_2:1637558_AT dm
CHICKEN:GGA.5932.1.S1_S_AT chloride channel 7 gga
CHICKEN:GGAAFFX.292.1.S1_S_AT chloride channel 7 gga
HG-U133A_2:38069_AT chloride channel 7 hs
HG-U133A:38069_AT chloride channel 7 hs
HG-U133_PLUS_2:38069_AT chloride channel 7 hs
HG-U95AV2:38069_AT chloride channel 7 hs
HU35KSUBD:RC_H99364_AT chloride channel 7 hs
HUGENEFL:Z67743_AT chloride channel 7 hs
U133_X3P:HS.80768.0.S2_3P_S_AT chloride channel 7 hs
HG-U133A_2:209235_AT chloride channel 7 hs
HG-U133_PLUS_2:209235_AT chloride channel 7 hs
HG-U133A:209235_AT chloride channel 7 hs
HU35KSUBC:RC_R46107_AT Chloride channel 7 hs
U133_X3P:HS.233789.0.A1_3P_AT Chloride channel 7 hs
HG-U133A_2:221961_AT Chloride channel 7 hs
HG-U133_PLUS_2:221961_AT Chloride channel 7 hs
HG-U133A:221961_AT Chloride channel 7 hs
HG-U95C:60860_F_AT Chloride channel 7 hs
HG-U95C:60950_F_AT Chloride channel 7 hs
HG-U95C:64272_AT Chloride channel 7 hs
MOUSE430_2:1425821_AT chloride channel 7 mm
MOUSE430A_2:1425821_AT chloride channel 7 mm
MOE430A:1425821_AT chloride channel 7 mm
MU11KSUBB:W99907_S_AT chloride channel 7 mm
MG-U74AV2:104392_AT chloride channel 7 mm
MG-U74AV2:104391_S_AT chloride channel 7 mm
MOE430A:1450408_AT chloride channel 7 mm
MOUSE430A_2:1450408_AT chloride channel 7 mm
MOUSE430_2:1450408_AT chloride channel 7 mm
MOE430B:1452702_AT chloride channel 7 mm
MOUSE430_2:1452702_AT chloride channel 7 mm
MG-U74AV2:162207_F_AT Chloride channel 7, mRNA (cDNA clone IMAGE:3600566) mm
MU19KSUBB:TC27441_AT Chloride channel 7, mRNA (cDNA clone IMAGE:3600566) mm
RN-U34:Z67744_AT chloride channel 7 rn
RG-U34A:Z67744_AT chloride channel 7 rn
RAE230A:1369700_AT chloride channel 7 rn
RAT230_2:1369700_AT chloride channel 7 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 CAB00111 Hypothetical protein R07B7.1 [Caenorhabditis elegans] ref|NP_506022.1| CLC-type chloride cHannel family member (clh-6) [Caenorhabditis elegans] gb|AAK01123.1| voltage-gated chloride channel CLH-6 [Caenorhabditis elegans] gb|AAG49526.1| CLC-type chloride channel CLH-6 [Caenorhabditis elegans] 0.0
blast CAE75378 Hypothetical protein CBG23365 [Caenorhabditis briggsae] 0.0
blast XP_396520 PREDICTED: similar to ENSANGP00000019052 [Apis mellifera] 1.0E-164
Protein Domains
Database ID Description E-Value
Pfam IPR000644 EMBL-EBI CBS domain 2.1E-7
Pfam IPR000644 EMBL-EBI CBS domain 5.3E-10
Pfam IPR001807 EMBL-EBI Cl- channel, voltage gated 1.0E-126
Pfam IPR000644 EMBL-EBI CBS domain 2.1E-7
Pfam IPR000644 EMBL-EBI CBS domain 5.3E-10
Pfam IPR001807 EMBL-EBI Cl- channel, voltage gated 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506022.1 7 103-125,158-180,271-293,308-330,351-373,393-415,469-491
R07B7.1 7 103-125,158-180,271-293,308-330,351-373,393-415,469-491
SNAP00000027082 7 103-125,158-180,271-293,308-330,351-373,393-415,474-496
GENEFINDER00000027111 7 103-125,158-180,271-293,308-330,351-373,393-415,469-491
Sequence
Target Sequence 
>C. ELEGANS:191402_AT
gaaacattttggcagaccgcgtgatgcgaaaagatgttgtggctctagaacggcgagaaa
gagtatccagaatcgttgaaattcttcgttccacacttcatcatggctttccagtagtag
atagaatcgaagaatcgccatacgaatcactccctgattatggacgcctgaaaggttata
ttctgcgatcacaactgttcaaacttctggaaaatcgaattttcgaggaagaaggagctt
caaactctgcacttccaaatgatttttatgaatgccaggatgacgacgaccaaatgaaat
ctgttgctgaactcggattaacaaatttcgacgagtcatgtttcctggacattgagccct
acatgcatcctcatccgcaccgtgttccactgaacacatctcttccattcattttccgac
ttttccgtggacttggacttcgatacctttttgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAACATTTTGGCAGACCGCGTGAT 172 357 1874 Antisense
ATCGTTGAAATTCTTCGTTCCACAC 669 35 1945 Antisense
TTCCACACTTCATCATGGCTTTCCA 586 701 1962 Antisense
AAGAATCGCCATACGAATCACTCCC 86 153 2003 Antisense
ATCACTCCCTGATTATGGACGCCTG 117 29 2019 Antisense
TATATTCTGCGATCACAACTGTTCA 564 661 2050 Antisense
TTCGACGAGTCATGTTTCCTGGACA 580 695 2200 Antisense
TGGACATTGAGCCCTACATGCATCC 435 547 2219 Antisense
ACTGAACACATCTCTTCCATTCATT 395 97 2262 Antisense
TCCGACTTTTCCGTGGACTTGGACT 551 593 2288 Antisense
GACTTGGACTTCGATACCTTTTTGT 306 371 2303 Antisense
Sequence Source Affymetrix Proprietary Database