[Home] | [Total List]

[188925_at] GABA receptor

Description ZC482.5 /REP_DB=WormBase Gene ID /WP=CE16695 /TR=O17555 /GB=CAB07722.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation /DEF=GABA receptor
Cluster 6grp_total > 02      4grp_total > 36      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 184
1 2 3 4 range
A 112.1
(-0.2)
A 		209.4
(3)
A 		25.7
(-3)
A 		134.7
(0.6)
A 		184
B 132
(2.3)
A 		104.5
(-0.5)
A 		79.8
(-3)
A 		139.1
(3)
A 		59
C 143.1
(2.1)
A 		141.5
(2)
A 		70.3
(-3)
A 		155.4
(3)
A 		85
avr 129.1
(1.5) 		151.8
(3) 		58.6
(-3) 		143.1
(2.4) 		93

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 110
1 2 3 4 5 6 range
A 100.2
(2.6)
A 		106.4
(3)
A 		78.3
(1.1)
A 		54.2
(-0.4)
A 		46.1
(-1)
A 		15.3
(-3)
A 		91
B 82.4
(0.5)
A 		124.9
(3)
A 		34.4
(-2.2)
A 		64.8
(-0.5)
A 		94.2
(1.2)
A 		21.2
(-3)
A 		104
C 106.5
(3)
A 		91.1
(1.2)
A 		100.2
(2.2)
A 		56.3
(-3)
A 		89.9
(1)
A 		81.4
(0)
A 		50
avr 96.4
(2) 		107.5
(3) 		71
(-0.2) 		58.4
(-1.3) 		76.7
(0.3) 		39.3
(-3) 		68
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 41
1 2 3 4 range
A 40.8
(2.3)
A 		45.5
(3)
A 		6.7
(-3)
A 		19.7
(-1)
A 		39
B 42.1
(3)
A 		25.8
(-1.1)
A 		18.5
(-3)
A 		29.6
(-0.2)
A 		24
C 47.4
(3)
A 		40.7
(1.2)
A 		24.5
(-3)
A 		26.2
(-2.6)
A 		23
avr 43.4
(3) 		37.3
(1.6) 		16.6
(-3) 		25.2
(-1.1) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 38
1 2 3 4 5 6 range
A 18.5
(-0.4)
A 		37.8
(3)
A 		17.1
(-0.6)
A 		13.7
(-1.2)
A 		13.9
(-1.2)
A 		3.7
(-3)
A 		34
B 28.7
(0.7)
A 		41.6
(3)
A 		8.3
(-2.9)
A 		17.2
(-1.3)
A 		38.3
(2.4)
A 		7.9
(-3)
A 		34
C 39.5
(3)
A 		27.8
(0.5)
A 		25.5
(0)
A 		11.3
(-3)
A 		29.1
(0.8)
A 		27.3
(0.4)
A 		28
avr 28.9
(1.2) 		35.7
(3) 		17
(-1.9) 		14.1
(-2.7) 		27.1
(0.7) 		13
(-3) 		23
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188925_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6881
Sequence Type Exemplar sequence
Representative Public ID ZC482.5 NCBI
Target Description ZC482.5 /REP_DB=WormBase Gene ID /WP=CE16695 /TR=O17555 /GB=CAB07722.1 /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_067261(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067261 NCBI Caenorhabditis elegans ZC482.5 (ZC482.5) mRNA, complete cds. 10/11 None
GENEFINDER00000027560 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:12789610:12792987:1 10/11 None
SNAP00000027552 ENSEMBL cdna:SNAP chromosome:CEL140:III:12791757:12792987:1 10/11 None
ZC482.5 ENSEMBL cdna:known chromosome:CEL140:III:12785027:12793001:1 gene:ZC482.5 10/11 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:12785029-12792983(+) 100.0 100.0
Public Domain and Genome References
Gene Title GABA receptor
Ensembl ZC482.5
Entrez Gene 176694 Entrez gene
SwissProt O17555 EMBL-EBI
WormBase CE33900 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.26377.1.S1_AT similar to Gamma-aminobutyric-acid receptor alpha-6 subunit precursor (GABA(A) receptor) cfa
DROSOPHILA_2:1629962_AT dm
DROSGENOME1:145161_AT dm
CHICKEN:GGA.550.1.S1_AT gamma-aminobutyric acid (GABA) A receptor, alpha 6 gga
HG-U133_PLUS_2:207182_AT gamma-aminobutyric acid (GABA) A receptor, alpha 6 hs
HG-U133A:207182_AT gamma-aminobutyric acid (GABA) A receptor, alpha 6 hs
HG-FOCUS:207182_AT gamma-aminobutyric acid (GABA) A receptor, alpha 6 hs
HG-U133A_2:207182_AT gamma-aminobutyric acid (GABA) A receptor, alpha 6 hs
HU35KSUBA:S81944_AT gamma-aminobutyric acid (GABA) A receptor, alpha 6 hs
HUGENEFL:S81944_AT gamma-aminobutyric acid (GABA) A receptor, alpha 6 hs
HU35KSUBB:RC_F10732_AT gamma-aminobutyric acid (GABA) A receptor, alpha 6 hs
U133_X3P:G4557606_3P_AT gamma-aminobutyric acid (GABA) A receptor, alpha 6 hs
HG-U95AV2:34025_AT gamma-aminobutyric acid (GABA) A receptor, alpha 6 hs
HG-U95B:47274_R_AT gamma-aminobutyric acid (GABA) A receptor, alpha 6 hs
MG-U74AV2:92940_S_AT gamma-aminobutyric acid (GABA-A) receptor, subunit alpha 6 mm
MU11KSUBB:X51986_S_AT gamma-aminobutyric acid (GABA-A) receptor, subunit alpha 6 mm
MG-U74AV2:92939_AT gamma-aminobutyric acid (GABA-A) receptor, subunit alpha 6 mm
MOE430A:1451706_A_AT gamma-aminobutyric acid (GABA-A) receptor, subunit alpha 6 mm
MOUSE430A_2:1451706_A_AT gamma-aminobutyric acid (GABA-A) receptor, subunit alpha 6 mm
MOUSE430_2:1451706_A_AT gamma-aminobutyric acid (GABA-A) receptor, subunit alpha 6 mm
MOE430A:1417121_AT gamma-aminobutyric acid (GABA-A) receptor, subunit alpha 6 mm
MOUSE430A_2:1417121_AT gamma-aminobutyric acid (GABA-A) receptor, subunit alpha 6 mm
MOUSE430_2:1417121_AT gamma-aminobutyric acid (GABA-A) receptor, subunit alpha 6 mm
RN-U34:L08495CDS_S_AT gamma-aminobutyric acid A receptor, alpha 6 rn
RG-U34A:L08495CDS_S_AT gamma-aminobutyric acid A receptor, alpha 6 rn
RAE230A:1369861_AT gamma-aminobutyric acid A receptor, alpha 6 rn
RAT230_2:1369861_AT gamma-aminobutyric acid A receptor, alpha 6 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
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 CAB07722 Hypothetical protein ZC482.5 [Caenorhabditis elegans] emb|CAB07549.2| Hypothetical protein ZC482.5 [Caenorhabditis elegans] ref|NP_499662.2| ZC482.5 [Caenorhabditis elegans] 0.0
blast CAE69530 Hypothetical protein CBG15739 [Caenorhabditis briggsae] 0.0
blast CAA51991 GABA A/glycine receptor subunit [Haemonchus contortus] 0.0
blast CAB07722 Hypothetical protein ZC482.5 [Caenorhabditis elegans] emb|CAB07549.2| Hypothetical protein ZC482.5 [Caenorhabditis elegans] ref|NP_499662.2| ZC482.5 [Caenorhabditis elegans] 1.0E-177
blast CAE69530 Hypothetical protein CBG15739 [Caenorhabditis briggsae] 1.0E-164
blast CAA51991 GABA A/glycine receptor subunit [Haemonchus contortus] 1.0E-125
blast CAB07722 Hypothetical protein ZC482.5 [Caenorhabditis elegans] emb|CAB07549.2| Hypothetical protein ZC482.5 [Caenorhabditis elegans] ref|NP_499662.2| ZC482.5 [Caenorhabditis elegans] 1.0E-118
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 5.1E-38
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 7.8E-66
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 5.1E-38
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 2.3E-14
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 4.1E-31
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499662.2 4 257-279,286-305,320-342,447-469
ZC482.5 4 257-279,286-305,320-342,447-469
GENEFINDER00000027560 4 84-106,113-132,147-169,274-296
SNAP00000027552 3 12-34,49-71,176-198
Sequence
Target Sequence 
>C. ELEGANS:188925_AT
ttggtctgcggacggatttgccgaaagtttcacattctacagcactggatgtctatattt
taacctgtttcgtctttcttttcgctgcaatggtggaatatgcagtgataaattatgcgc
aaattgtatatattcggaaacaaattcacgacttaaaaggtctcgagcagaataccgcga
tgggccaaatgttcacagcaggtctgatgggagcccgccgccgtgacacgattcaggtgg
acgatctgactgtggagaaggaagaagctcggcttaaagcagttccatggtggaagaaac
tgtgttttaaggatgaacagggaaatacttcaagtgagtggcagttggaaaaaaaaatta
attttgaaaaaaattctccagtgttctaccgtatggctgtgaaagcagcaattgccaaga
aaactttgaggaatggagatccggctgaggtcgtcaacaaaatcgataatttctcgaaac
tggcatttccgacgctgtacatcatattcaatgtattttactgggttgcatatctacatc
tga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGGTCTGCGGACGGATTTGCCGAA 562 707 920 Antisense
AGTTTCACATTCTACAGCACTGGAT 441 63 945 Antisense
CGTCTTTCTTTTCGCTGCAATGGTG 290 247 990 Antisense
GAGCAGAATACCGCGATGGGCCAAA 393 389 1084 Antisense
CACAGCAGGTCTGATGGGAGCCCGC 273 195 1113 Antisense
CGCCGCCGTGACACGATTCAGGTGG 356 257 1135 Antisense
AAAATTCTCCAGTGTTCTACCGTAT 6 123 1289 Antisense
AATGGAGATCCGGCTGAGGTCGTCA 286 163 1351 Antisense
TTCTCGAAACTGGCATTTCCGACGC 9 693 1390 Antisense
TTTCCGACGCTGTACATCATATTCA 699 669 1405 Antisense
TACTGGGTTGCATATCTACATCTGA 446 641 1438 Antisense
Sequence Source Affymetrix Proprietary Database