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[192751_at] ligand-gated ionic channel protein

Description T15B7.16 /REP_DB=WormBase Gene ID /WP=CE13676 /TR=O17041 /GB=AAB69969.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=ligand-gated ionic channel protein
Cluster 6grp_highest_10_10 > 36      6grp_high1_10_10 > 62      4grp_high_8_8 > 01      6grp_highest_nonorm > 90      6grp_total > 63      4grp_total > 22      6grp_highest_sub > 03      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 140
1 2 3 4 range
A 117.2
(3)
P 		82.8
(0.2)
P 		43.8
(-3)
A 		112.8
(2.6)
P 		73
B 129.8
(3)
P 		72.9
(-2)
A 		61.5
(-3)
A 		116.2
(1.8)
P 		68
C 165.4
(2.1)
P 		62.2
(-3)
P 		78.5
(-2.2)
P 		183.4
(3)
P 		121
avr 137.5
(3) 		72.6
(-2.1) 		61.3
(-3) 		137.5
(3) 		76

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 163
1 2 3 4 5 6 range
A 116.2
(-3)
P 		124.6
(-2.7)
P 		267.9
(3)
P 		187.6
(-0.2)
P 		180.6
(-0.4)
P 		115.9
(-3)
P 		152
B 107.7
(-3)
P 		156.7
(-0.5)
P 		224.6
(3)
P 		200.4
(1.8)
P 		166.7
(0)
P 		146
(-1)
P 		117
C 105.1
(-3)
P 		167.7
(0.2)
P 		224.3
(3)
P 		202.6
(1.9)
P 		134.4
(-1.5)
P 		145.6
(-1)
P 		119
avr 109.7
(-3) 		149.7
(-1.1) 		238.9
(3) 		196.9
(1) 		160.6
(-0.6) 		135.8
(-1.8) 		129
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 43
1 2 3 4 range
A 42.7
(3)
P 		18
(-1.8)
P 		11.5
(-3)
A 		16.5
(-2)
P 		31
B 41.4
(3)
P 		18
(-2.2)
A 		14.2
(-3)
A 		24.8
(-0.7)
P 		27
C 54.7
(3)
P 		17.9
(-3)
P 		27.3
(-1.5)
P 		30.9
(-0.9)
P 		37
avr 46.3
(3) 		18
(-2.9) 		17.7
(-3) 		24.1
(-1.7) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 46
1 2 3 4 5 6 range
A 21.4
(-3)
P 		44.3
(0.7)
P 		58.4
(3)
P 		47.6
(1.2)
P 		54.5
(2.4)
P 		28.2
(-1.9)
P 		37
B 37.5
(-3)
P 		52.2
(-0.1)
P 		54.5
(0.4)
P 		53.1
(0.1)
P 		67.7
(3)
P 		54.4
(0.4)
P 		30
C 39
(-3)
P 		51.2
(1)
P 		57.1
(3)
P 		40.7
(-2.4)
P 		43.5
(-1.5)
P 		48.8
(0.2)
P 		18
avr 32.6
(-3) 		49.2
(1.1) 		56.7
(3) 		47.1
(0.6) 		55.2
(2.6) 		43.8
(-0.2) 		24
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192751_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11934
Sequence Type Exemplar sequence
Representative Public ID T15B7.16 NCBI
Target Description T15B7.16 /REP_DB=WormBase Gene ID /WP=CE13676 /TR=O17041 /GB=AAB69969.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=ligand-gated 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_072340(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072340 NCBI Caenorhabditis elegans T15B7.16 (T15B7.16) mRNA, complete cds. 9/11 None
GENEFINDER00000035404 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:6842880:6845313:-1 11/11 None
T15B7.16 ENSEMBL cdna:known chromosome:CEL140:V:6843101:6845564:-1 gene:T15B7.16 9/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000035393 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:6842880-6845565(-) 100.0 100.0
Public Domain and Genome References
Gene Title ligand-gated ionic channel protein
Ensembl T15B7.16
Entrez Gene 188525 Entrez gene
SwissProt O17041 EMBL-EBI
WormBase CE30301 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
4890 GABA-A receptor activity inferred from electronic annotation QuickGO AmiGO
5230 extracellular ligand-gated ion channel activity inferred from electronic annotation QuickGO AmiGO
30594 neurotransmitter receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAB69969 Hypothetical protein T15B7.16 [Caenorhabditis elegans] ref|NP_504741.2| T15B7.16 [Caenorhabditis elegans] 0.0
blast CAE71962 Hypothetical protein CBG19032 [Caenorhabditis briggsae] 0.0
blast CAE59048 Hypothetical protein CBG02331 [Caenorhabditis briggsae] 7.0E-90
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 1.1E-12
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 4.6E-74
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504741.2 3 257-279,286-308,323-345
T15B7.16 3 257-279,286-308,323-345
Sequence
Target Sequence 
>C. ELEGANS:192751_AT
gacctgaaagctcttccagctagaattacacttggagtcagttcactaatggctttgaca
tttcagtatggaaatgttgctaaaaacctgccgagagttggttatgtgaaatcaattgac
gtttatatggtgctaacaaccgcgtttatatttctaacaatgattgaagtggctttcgtt
tgctatctggacagtgagaataacttgaggcgaaaagaacggcaggcggagaagaaaaaa
gaacgagtcgcggttttacaaagaaaaaaagacagaaagaaaaataactatggtgcaact
acagtaaccaatgcaaatgcagcagagagcgacttgaggagcaattatgatgagcctttt
tcacagaacgggactacaagccataaaatttcaatttctcgacaagcgaacaatatgttc
gaatctttgcacgctctcgcacaattcggactcctcacggatgacgatgacgaaaatacc
aaatggactgcacaaaatgtcgacaaattctgcagaaaagcatttccattgtcgttttgt
tttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACCTGAAAGCTCTTCCAGCTAGAA 172 383 859 Antisense
GGAGTCAGTTCACTAATGGCTTTGA 228 517 892 Antisense
GTTGCTAAAAACCTGCCGAGAGTTG 244 439 934 Antisense
TATGGTGCTAACAACCGCGTTTATA 126 655 984 Antisense
TGAAGTGGCTTTCGTTTGCTATCTG 452 573 1023 Antisense
GCAGCAGAGAGCGACTTGAGGAGCA 579 313 1177 Antisense
GGAGCAATTATGATGAGCCTTTTTC 40 521 1196 Antisense
GAGCCTTTTTCACAGAACGGGACTA 117 385 1210 Antisense
ATATGTTCGAATCTTTGCACGCTCT 452 21 1271 Antisense
ATTCGGACTCCTCACGGATGACGAT 303 7 1302 Antisense
GCATTTCCATTGTCGTTTTGTTTTC 63 309 1378 Antisense
Sequence Source Affymetrix Proprietary Database