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[190363_at] ionic channel protein

Description T05B4.1 /REP_DB=WormBase Gene ID /WP=CE13193 /TR=O16426 /GB=AAC69055.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=ionic channel protein
Cluster 6grp_total > 35      4grp_total > 11      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 138
1 2 3 4 range
A 52.6
(-2.1)
M 		54.8
(-1.2)
A 		50.3
(-3)
A 		65.4
(3)
A 		15
B 68.4
(-0.2)
A 		46.4
(-2.6)
A 		42.9
(-3)
A 		98.1
(3)
A 		55
C 40.6
(-2.7)
A 		49.1
(-2.3)
A 		32.9
(-3)
A 		171.2
(3)
P 		138
avr 53.9
(-2) 		50.1
(-2.3) 		42
(-3) 		111.6
(3) 		70

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 83
1 2 3 4 5 6 range
A 29.1
(-1.2)
A 		74.2
(2.5)
A 		68.5
(2)
M 		7.7
(-3)
A 		55
(0.9)
A 		80.4
(3)
A 		73
B 68.8
(3)
A 		35.2
(-1.8)
A 		45.9
(-0.3)
A 		62
(2)
A 		29.9
(-2.5)
A 		26.6
(-3)
A 		42
C 71.2
(1.8)
A 		73.1
(1.9)
A 		48.4
(0.1)
A 		87.8
(3)
A 		5.3
(-3)
A 		37.5
(-0.7)
A 		83
avr 56.4
(2.1) 		60.8
(3) 		54.3
(1.7) 		52.5
(1.4) 		30.1
(-3) 		48.2
(0.5) 		31
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 19
1 2 3 4 range
A 19.2
(3)
M 		11.9
(-1.6)
A 		13.1
(-0.8)
A 		9.6
(-3)
A 		10
B 21.8
(3)
A 		11.5
(-2.2)
A 		9.9
(-3)
A 		20.9
(2.5)
A 		12
C 13.4
(-2.3)
A 		14.1
(-2.1)
A 		11.5
(-3)
A 		28.9
(3)
P 		17
avr 18.1
(1.8) 		12.5
(-2.3) 		11.5
(-3) 		19.8
(3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 25
1 2 3 4 5 6 range
A 5.4
(-2.1)
A 		26.4
(3)
A 		14.9
(0.2)
M 		1.9
(-3)
A 		16.6
(0.6)
A 		19.6
(1.3)
A 		25
B 23.9
(3)
A 		11.7
(-2.2)
A 		11.1
(-2.5)
A 		16.4
(-0.2)
A 		12.2
(-2)
A 		9.9
(-3)
A 		14
C 26.4
(3)
A 		22.3
(2)
A 		12.3
(-0.4)
A 		17.7
(0.9)
A 		1.7
(-3)
A 		12.6
(-0.4)
A 		25
avr 18.6
(2.1) 		20.1
(3) 		12.8
(-1.4) 		12
(-1.9) 		10.2
(-3) 		14
(-0.7) 		10
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190363_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15034
Sequence Type Exemplar sequence
Representative Public ID T05B4.1 NCBI
Target Description T05B4.1 /REP_DB=WormBase Gene ID /WP=CE13193 /TR=O16426 /GB=AAC69055.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=ionic channel protein
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_071753(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071753 NCBI Caenorhabditis elegans T05B4.1 (T05B4.1) mRNA, complete cds. 10/11 None
SNAP00000031070 ENSEMBL cdna:SNAP chromosome:CEL140:V:4134841:4138614:1 10/11 None
T05B4.1 ENSEMBL cdna:known chromosome:CEL140:V:4135145:4138638:1 gene:T05B4.1 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000031072 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:4136077-4138658(+) 97.47 97.47
Public Domain and Genome References
Gene Title ionic channel protein
Ensembl T05B4.1
Entrez Gene 188099 Entrez gene
SwissProt O16426 EMBL-EBI
WormBase CE34986 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
6811 ion transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
45211 postsynaptic membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5230 extracellular ligand-gated ion channel activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC69055 Hypothetical protein T05B4.1 [Caenorhabditis elegans] ref|NP_504154.2| T05B4.1 [Caenorhabditis elegans] 1.0E-165
blast AAC69055 Hypothetical protein T05B4.1 [Caenorhabditis elegans] ref|NP_504154.2| T05B4.1 [Caenorhabditis elegans] 1.0E-147
blast CAE65448 Hypothetical protein CBG10413 [Caenorhabditis briggsae] 1.0E-125
blast CAE65448 Hypothetical protein CBG10413 [Caenorhabditis briggsae] 1.0E-113
blast CAE65449 Hypothetical protein CBG10414 [Caenorhabditis briggsae] 3.0E-97
blast CAE65449 Hypothetical protein CBG10414 [Caenorhabditis briggsae] 1.0E-95
Protein Domains
Database ID Description E-Value
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.3E-16
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 6.5E-10
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504154.2 4 176-198,208-225,237-259,289-311
T05B4.1 4 176-198,208-225,237-259,289-311
SNAP00000031070 4 213-235,245-262,274-296,326-348
Sequence
Target Sequence 
>C. ELEGANS:190363_AT
tcagctgtgcagcggtttgtggcaagaatcgagaggaatccgggattctatgtgactctg
gttatggtacccgcgtttttcatcaacttcctgtcgattattgctctgtgccttaatatt
gaaaatgttggagaaaagataaccgtgggtctcaccaatattatggcgatgactttcata
ttggtaattttagcgcaggatctgccgaaaaccaagagaattccacttttagcaatttat
gtgattgttggattggtaattgtgatggcctcaattggtgtagtgcttacacttcccttg
attcgaaatcatttgaaaaagcggcaaaaaggaaaagaagagaagccagttgagacaagc
agtgaatctgaaaaaaaaatctatcaaccaatctatcgggctcagattctccaaatggtt
cggctggctaacagtcgagtacgttgtgatgtttgtcttccaactcgccaatctcatcaa
ctttataa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAGCTGTGCAGCGGTTTGTGGCAA 557 623 496 Antisense
AATCCGGGATTCTATGTGACTCTGG 546 167 532 Antisense
TTATGGTACCCGCGTTTTTCATCAA 347 549 557 Antisense
AACTTCCTGTCGATTATTGCTCTGT 419 139 580 Antisense
GATAACCGTGGGTCTCACCAATATT 639 421 633 Antisense
GATGGCCTCAATTGGTGTAGTGCTT 155 407 759 Antisense
TGTAGTGCTTACACTTCCCTTGATT 386 559 774 Antisense
CTATCAACCAATCTATCGGGCTCAG 9 225 876 Antisense
GGTTCGGCTGGCTAACAGTCGAGTA 254 507 912 Antisense
TTGTGATGTTTGTCTTCCAACTCGC 457 707 939 Antisense
CTCGCCAATCTCATCAACTTTATAA 27 235 959 Antisense
Sequence Source Affymetrix Proprietary Database