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[188905_at] GABA receptor

Description ZC482.1 /REP_DB=WormBase Gene ID /WP=CE16691 /TR=O18276 /GB=CAB07719.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=GABA receptor
Cluster 4grp_high_8_8 > 20      6grp_total > 15      4grp_total > 28      6grp_cgc > 32      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 154
1 2 3 4 range
A 160.7
(-0.6)
M 		171.4
(-0.2)
P 		109.7
(-3)
A 		239.7
(3)
P 		130
B 147.3
(0.1)
P 		193.6
(2.4)
P 		85.4
(-3)
M 		206.6
(3)
P 		121
C 158.9
(0.8)
P 		164.8
(1.6)
P 		130.5
(-3)
P 		175.6
(3)
P 		45
avr 155.6
(-0.1) 		176.6
(1.1) 		108.5
(-3) 		207.3
(3) 		99

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 139
1 2 3 4 5 6 range
A 177.3
(3)
A 		112.8
(-1.1)
A 		162.1
(2)
A 		83
(-3)
A 		110.7
(-1.2)
P 		97.3
(-2.1)
A 		94
B 189.9
(3)
P 		187.1
(2.9)
A 		104.3
(-0.7)
A 		70.4
(-2.2)
A 		82.8
(-1.6)
P 		51.2
(-3)
A 		139
C 138
(1.9)
P 		148.4
(3)
A 		123.6
(0.5)
A 		89.2
(-3)
M 		105.5
(-1.3)
P 		105.6
(-1.3)
M 		59
avr 168.4
(3) 		149.4
(1.7) 		130
(0.4) 		80.9
(-3) 		99.7
(-1.7) 		84.7
(-2.7) 		88
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 58.5
(3)
M 		37.2
(-1.3)
P 		28.7
(-3)
A 		35.1
(-1.7)
P 		30
B 47
(2.8)
P 		47.8
(3)
P 		19.8
(-3)
M 		44
(2.2)
P 		28
C 52.6
(3)
P 		47.4
(1.6)
P 		45.5
(1.1)
P 		29.6
(-3)
P 		23
avr 52.7
(3) 		44.1
(0.6) 		31.3
(-3) 		36.2
(-1.6) 		21

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 48
1 2 3 4 5 6 range
A 32.7
(0.7)
A 		40.1
(3)
A 		35.3
(1.5)
A 		21.1
(-3)
A 		33.4
(0.9)
P 		23.7
(-2.2)
A 		19
B 66.1
(3)
P 		62.3
(2.5)
A 		25.3
(-2.2)
A 		18.6
(-3)
A 		33.6
(-1.1)
P 		19.1
(-2.9)
A 		48
C 51.1
(3)
P 		45.3
(2)
A 		31.5
(-0.5)
A 		17.9
(-3)
M 		34.1
(-0.1)
P 		35.4
(0.2)
M 		33
avr 50
(3) 		49.2
(2.8) 		30.7
(-0.8) 		19.2
(-3) 		33.7
(-0.2) 		26.1
(-1.7) 		31
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188905_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6781
Sequence Type Exemplar sequence
Representative Public ID ZC482.1 NCBI
Target Description ZC482.1 /REP_DB=WormBase Gene ID /WP=CE16691 /TR=O18276 /GB=CAB07719.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=GABA receptor
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_067260(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067260 NCBI Caenorhabditis elegans GABa receptor subunit family member (gab-1) (gab-1) mRNA, complete cds. 11/11 None
SNAP00000004046 ENSEMBL cdna:SNAP chromosome:CEL140:III:12771862:12777087:-1 11/11 None
GENEFINDER00000004052 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:12772797:12779598:-1 11/11 None
ZC482.1 ENSEMBL cdna:known chromosome:CEL140:III:12771751:12779599:-1 gene:ZC482.1 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
chrIII:12772948-12779191(-) 100.0 100.0
Public Domain and Genome References
Gene Title GABA receptor
Gene Symbol gab-1
Ensembl ZC482.1
Entrez Gene 176691 Entrez gene
SwissProt O18276 EMBL-EBI
WormBase CE33742 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1589105_AT similar to Gamma-aminobutyric-acid receptor beta-3 subunit precursor (GABA(A) receptor) cfa
CANINE_2:CFA.11206.1.A1_AT similar to Gamma-aminobutyric-acid receptor beta-3 subunit precursor (GABA(A) receptor) cfa
CANINE_2:CFAAFFX.15752.1.S1_AT similar to Gamma-aminobutyric-acid receptor beta-3 subunit precursor (GABA(A) receptor) cfa
DROSOPHILA_2:1623048_A_AT Ligand-gated chloride channel homolog 3 dm
DROSGENOME1:152194_AT Ligand-gated chloride channel homolog 3 dm
CHICKEN:GGA.747.1.S1_AT gamma-aminobutyric acid (GABA) A receptor, beta 3 gga
HG-U95AV2:31817_AT gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HG-U133_PLUS_2:229724_AT gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HG-U133B:229724_AT gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HG-U133_PLUS_2:205850_S_AT gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HG-U133A:205850_S_AT gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HG-FOCUS:205850_S_AT gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HG-U133A_2:205850_S_AT gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HUGENEFL:M82919_AT gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
U133_X3P:G12548782_3P_A_AT gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
U133_X3P:HS2.407625.1.S1_3P_S_AT gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
U133_X3P:HS.1440.2.A1_3P_AT gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HG-U133_PLUS_2:1569689_S_AT gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HG-U95C:50272_AT gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HU35KSUBA:RC_AA129128_F_AT Gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HU35KSUBB:RC_R15880_AT Gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HU35KSUBD:RC_H05135_I_AT Gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
U133_X3P:HS2.302352.1.S1_3P_S_AT Gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
U133_X3P:HS2.302352.1.S1_3P_AT Gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
U133_X3P:HS.78580.1.A2_3P_AT Gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
U133_X3P:HS.78580.1.A1_3P_AT Gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HG-U133_PLUS_2:1561316_AT Gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HG-U133B:227690_AT Gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HG-U133_PLUS_2:227690_AT Gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HG-U133_PLUS_2:227830_AT Gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HG-U133B:227830_AT Gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HG-U95C:63823_AT Gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
HG-U95D:83505_AT Gamma-aminobutyric acid (GABA) A receptor, beta 3 hs
MOUSE430_2:1421189_AT gamma-aminobutyric acid (GABA-A) receptor, subunit beta 3 mm
MOE430A:1421189_AT gamma-aminobutyric acid (GABA-A) receptor, subunit beta 3 mm
MOUSE430A_2:1421189_AT gamma-aminobutyric acid (GABA-A) receptor, subunit beta 3 mm
MOUSE430A_2:1421190_AT gamma-aminobutyric acid (GABA-A) receptor, subunit beta 3 mm
MOE430A:1421190_AT gamma-aminobutyric acid (GABA-A) receptor, subunit beta 3 mm
MOUSE430_2:1421190_AT gamma-aminobutyric acid (GABA-A) receptor, subunit beta 3 mm
MU11KSUBB:MSA.1705.0_AT gamma-aminobutyric acid (GABA-A) receptor, subunit beta 3 mm
MG-U74AV2:99897_AT gamma-aminobutyric acid (GABA-A) receptor, subunit beta 3 mm
MG-U74BV2:114389_AT gamma-aminobutyric acid (GABA-A) receptor, subunit beta 3 mm
MOE430B:1435021_AT gamma-aminobutyric acid (GABA-A) receptor, subunit beta 3 mm
MOUSE430_2:1435021_AT gamma-aminobutyric acid (GABA-A) receptor, subunit beta 3 mm
MG-U74CV2:129860_AT Gamma-aminobutyric acid (GABA-A) receptor, subunit beta 3 (Gabrb3), mRNA mm
MG-U74CV2:131123_AT Gamma-aminobutyric acid (GABA-A) receptor, subunit beta 3 (Gabrb3), mRNA mm
RN-U34:X15468CDS_AT gamma-aminobutyric acid receptor, subunit beta 3 rn
RG-U34A:X15468CDS_AT gamma-aminobutyric acid receptor, subunit beta 3 rn
RAE230A:1369903_AT gamma-aminobutyric acid receptor, subunit beta 3 rn
RAT230_2:1369903_AT gamma-aminobutyric acid receptor, subunit beta 3 rn
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
6811 ion transport inferred from direct assay QuickGO AmiGO
7268 synaptic transmission inferred from sequence similarity 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
5216 ion channel 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
4890 GABA-A receptor activity inferred from direct assay QuickGO AmiGO
5230 extracellular ligand-gated ion channel activity inferred from direct assay QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB07719 Hypothetical protein ZC482.1 [Caenorhabditis elegans] ref|NP_499661.2| GABa receptor subunit family member (gab-1) [Caenorhabditis elegans] 0.0
blast AAN65376 GABA-A receptor subunit [Caenorhabditis elegans] 0.0
blast CAE69531 Hypothetical protein CBG15740 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 1.3E-36
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 1.6E-5
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 3.8E-9
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 4.4E-73
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 8.2E-37
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 1.6E-5
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 0.016
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 9.2E-15
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 3.5E-48
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 6.4E-50
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 3.8E-9
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 3.5E-83
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499661.2 4 263-285,292-311,326-348,525-547
ZC482.1 4 263-285,292-311,326-348,525-547
SNAP00000004046 4 195-217,224-243,294-316,495-517
GENEFINDER00000004052 3 364-386,393-412,470-492
Sequence
Target Sequence 
>C. ELEGANS:188905_AT
ctagagtacgcagccgtcaactactcctactggggacgtgaacgaggaaagggtggcgga
ggaaacgagtggccagtcaacggagcgaataaagaggaccgcgagtcggcggtgaatgtt
caaaaatgggtgcccagtgggttgatggatggtgtacctcaacctcaagatcggcgggtt
gaagctcttgaagaggcgatgagcacgagtaacacagctgctcagaataataattttgaa
agcacctcaaaacccaagaagcgttcatcttcaccaattccaccactatgccgagctggt
aacacgataagtgaagaatcggaatcgcctgactatccgagatattcaacgacttccctg
aaaggagcaaggccgcatgcttccttaaatcacaagacacatcatctcaaagggagaagc
tcggctagagctaagcgaagaatgactttggctcgaatgaatgtatccatgaaacaatca
atatcaggaattgggcgaagagcacggaaagtgattccgacgattcgtgttcgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTAGAGTACGCAGCCGTCAACTACT 241 203 1051 Antisense
TCAACTACTCCTACTGGGGACGTGA 649 625 1067 Antisense
ACGAGTGGCCAGTCAACGGAGCGAA 539 93 1115 Antisense
GATGGTGTACCTCAACCTCAAGATC 643 407 1198 Antisense
GATCGGCGGGTTGAAGCTCTTGAAG 520 413 1219 Antisense
AAGAAGCGTTCATCTTCACCAATTC 306 153 1306 Antisense
TTCCACCACTATGCCGAGCTGGTAA 22 699 1328 Antisense
GAAGAATCGGAATCGCCTGACTATC 704 339 1363 Antisense
TATCCGAGATATTCAACGACTTCCC 595 655 1384 Antisense
AAAGGAGCAAGGCCGCATGCTTCCT 494 121 1411 Antisense
GTGATTCCGACGATTCGTGTTCGAG 293 485 1561 Antisense
Sequence Source Affymetrix Proprietary Database