[Home] | [Total List]

[172024_x_at]

Description g6467492 /REP_DB=GenBank Identifier /GB=AF173170.1 /PROTEIN_GB=AAF13163.1 /CHR=2 /FEA=Mapped Transcript /DEF=CLC chloride channel protein
Cluster 6grp_highest_10_10 > 99      6grp_high1_10_10 > 69      4grp_highest_8_8 > 31      4grp_high_8_8 > 13      6grp_highest_nonorm > 86      6grp_total > 39      4grp_total > 11      6grp_cgc > 19      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1357
1 2 3 4 range
A 989
(-2.5)
P 		916.1
(-2.8)
P 		873.2
(-3)
P 		2166.8
(3)
P 		1294
B 1029
(-1.8)
P 		969.8
(-2.1)
P 		810.1
(-3)
P 		1877.4
(3)
P 		1067
C 995.5
(-1.9)
P 		978.9
(-2)
P 		844.5
(-3)
P 		1676.1
(3)
P 		832
avr 1004.5
(-2.1) 		954.9
(-2.4) 		842.6
(-3) 		1906.8
(3) 		1064

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 619
1 2 3 4 5 6 range
A 1182.7
(1.5)
P 		1100.5
(0.7)
P 		716.8
(-3)
P 		1022.4
(-0)
P 		1335.5
(3)
P 		1232.3
(2)
P 		619
B 923.6
(-1.3)
P 		1072.6
(2.1)
P 		848.3
(-3)
P 		1070.2
(2.1)
P 		967.7
(-0.3)
P 		1110.8
(3)
P 		263
C 936.2
(-1.6)
P 		1036.5
(0)
P 		853.5
(-3)
P 		858.6
(-2.9)
P 		1213.6
(3)
P 		1060.1
(0.4)
P 		360
avr 1014.2
(0.4) 		1069.9
(1.3) 		806.2
(-3) 		983.7
(-0.1) 		1172.3
(3) 		1134.4
(2.4) 		366
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 212
1 2 3 4 range
A 360.1
(3)
P 		198.9
(-3)
P 		228.3
(-1.9)
P 		317.2
(1.4)
P 		161
B 328.1
(1)
P 		239.5
(-1.5)
P 		187.7
(-3)
P 		400.1
(3)
P 		212
C 329.5
(3)
P 		281.4
(-3)
P 		294.3
(-1.4)
P 		282.6
(-2.9)
P 		48
avr 339.2
(3) 		239.9
(-2.8) 		236.8
(-3) 		333.3
(2.7) 		102

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 258
1 2 3 4 5 6 range
A 218
(-1.5)
P 		391.4
(2.7)
P 		156.1
(-3)
P 		259.3
(-0.5)
P 		403
(3)
P 		300
(0.5)
P 		247
B 321.4
(0.3)
P 		357
(1.4)
P 		206
(-3)
P 		283.5
(-0.8)
P 		393.2
(2.4)
P 		414.2
(3)
P 		208
C 347
(1.8)
P 		316.3
(0.9)
P 		217.2
(-1.8)
P 		172.7
(-3)
P 		392.7
(3)
P 		354.9
(2)
P 		220
avr 295.5
(0) 		354.9
(1.8) 		193.1
(-3) 		238.5
(-1.7) 		396.3
(3) 		356.4
(1.8) 		203
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172024_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19703
Sequence Type Exemplar sequence
Representative Public ID 6467492 NCBI
Target Description g6467492 /REP_DB=GenBank Identifier /GB=AF173170.1 /PROTEIN_GB=AAF13163.1 /CHR=2 /FEA=Mapped Transcript /DEF=CLC chloride channel protein
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_001027203(11), 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. 11/11 None
NM_001027202 NCBI Caenorhabditis elegans CLC-type chloride cHannel family member (clh-1) (clh-1) mRNA, complete cds. 11/11 None
GENEFINDER00000038211 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11846764:11854647:-1 9/11 None
T27D12.2b ENSEMBL cdna:known chromosome:CEL140:II:11846413:11854648:-1 gene:T27D12.2 11/11 A 
T27D12.2a ENSEMBL cdna:known chromosome:CEL140:II:11846592:11854648:-1 gene:T27D12.2 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000038205 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:11846588-11854647(-) 100.0 100.0
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
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
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:172024_X_AT
aacacgagccgattgtgcactctttggcaaagagagctgaaattctatcaaagaaattgg
acatggaagaagtggcaatcgatccggcaccgttccagttggttagaggcacctctcttt
acaaggtccacaccctgttctcccttcttgctctcaaccatgcctatgttactgaaaaag
gtcgtctttgtggtgtagttgccgtgaaggaacttcgtgaggcgctcagtaacatctaca
gtagaggagctgtcgtcccgaaacagagaatccgaacatccacattccgactcaatccag
aacaagatcttgaccgtgagctccaaaacggccatacagcggagccaaacggcgccccaa
tcagacaaccacgtgtcacaatcgatgttcctgaaaacgcaaagacggatgacgaaaccc
gctaaattttgtgaaaaatttcaaattctagtcaaccaaacagtcaatcattccttccat
tattattattattttaaagcgtcccccccggttgtttcctctttctctcccagtttctgt
aagt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACACGAGCCGATTGTGCACTCTTT 31 135 2312 Antisense
AAGAAGTGGCAATCGATCCGGCACC 672 151 2378 Antisense
GGCACCGTTCCAGTTGGTTAGAGGC 482 523 2397 Antisense
AGAGGCACCTCTCTTTACAAGGTCC 60 39 2416 Antisense
TGCTCTCAACCATGCCTATGTTACT 183 581 2460 Antisense
GGTCGTCTTTGTGGTGTAGTTGCCG 263 503 2491 Antisense
GTGAGGCGCTCAGTAACATCTACAG 173 481 2528 Antisense
AGATCTTGACCGTGAGCTCCAAAAC 43 67 2616 Antisense
ACCACGTGTCACAATCGATGTTCCT 106 85 2679 Antisense
AAACAGTCAATCATTCCTTCCATTA 233 129 2769 Antisense
TCTTTCTCTCCCAGTTTCTGTAAGT 254 615 2831 Antisense
Sequence Source GenBank