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[189510_at]

Description C45B2.4 /REP_DB=WormBase Gene ID /WP=CE02554 /GEN=gbr-5 /GB=AAK68248.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=Glycine receptor
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 17      4grp_high_8_8 > 25      6grp_highest_nonorm > 90      6grp_total > 07      4grp_total > 38      6grp_highest_sub > De      6grp_cgc > 12      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 221
1 2 3 4 range
A 262.2
(3)
P 		141
(-1.7)
P 		106.3
(-3)
P 		161.2
(-0.9)
P 		156
B 253.4
(3)
P 		119.7
(-1.6)
P 		80.4
(-3)
A 		147.8
(-0.7)
P 		173
C 301
(3)
P 		160.5
(-1.7)
P 		129.1
(-2.7)
P 		120.2
(-3)
P 		181
avr 272.2
(3) 		140.4
(-1.7) 		105.3
(-3) 		143.1
(-1.6) 		167

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 249
1 2 3 4 5 6 range
A 318
(3)
P 		157.5
(-0.9)
P 		127.9
(-1.6)
P 		92
(-2.4)
P 		111.2
(-2)
P 		68.6
(-3)
P 		249
B 222.2
(3)
P 		196.8
(1.8)
P 		134.4
(-1.1)
P 		94.4
(-3)
P 		118.2
(-1.9)
P 		107.1
(-2.4)
P 		128
C 232.6
(3)
P 		127.8
(-1.7)
P 		115.9
(-2.2)
P 		104.4
(-2.7)
P 		126.6
(-1.7)
P 		98.5
(-3)
P 		134
avr 257.6
(3) 		160.7
(-0.5) 		126.1
(-1.7) 		96.9
(-2.8) 		118.7
(-2) 		91.4
(-3) 		166
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 81
1 2 3 4 range
A 95.5
(3)
P 		30.6
(-2.4)
P 		27.8
(-2.6)
P 		23.6
(-3)
P 		72
B 80.8
(3)
P 		29.6
(-1.9)
P 		18.6
(-3)
A 		31.5
(-1.8)
P 		62
C 99.6
(3)
P 		46.1
(-1)
P 		45
(-1.1)
P 		20.3
(-3)
P 		79
avr 92
(3) 		35.4
(-2.1) 		30.5
(-2.5) 		25.1
(-3) 		67

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 70
1 2 3 4 5 6 range
A 58.6
(3)
P 		56
(2.6)
P 		27.9
(-1.4)
P 		23.3
(-2.1)
P 		33.6
(-0.6)
P 		16.7
(-3)
P 		42
B 77.3
(3)
P 		65.5
(1.6)
P 		32.6
(-2.1)
P 		25
(-3)
P 		48
(-0.4)
P 		39.9
(-1.3)
P 		52
C 86.2
(3)
P 		39
(-1.3)
P 		29.5
(-2.2)
P 		21
(-3)
P 		41
(-1.2)
P 		33
(-1.9)
P 		65
avr 74
(3) 		53.5
(0.6) 		30
(-2.2) 		23.1
(-3) 		40.9
(-0.9) 		29.9
(-2.2) 		51
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189510_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16704
Sequence Type Exemplar sequence
Representative Public ID C45B2.4 NCBI
Target Description C45B2.4 /REP_DB=WormBase Gene ID /WP=CE02554 /GEN=gbr-5 /GB=AAK68248.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=Glycine 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_001029302(11), NM_001029301(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029302 NCBI Caenorhabditis elegans GABA/Glycine Receptor family (see gbr) family member (ggr-2) (ggr-2) mRNA, complete cds. 11/11 None
NM_001029301 NCBI Caenorhabditis elegans GABA/Glycine Receptor family (see gbr) family member (ggr-2) (ggr-2) mRNA, complete cds. 11/11 None
GENEFINDER00000012834 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6072922:6081621:1 11/11 None
C45B2.4b.2 ENSEMBL cdna:known chromosome:CEL140:X:6070456:6081407:1 gene:C45B2.4 11/11 None
C45B2.4b.1 ENSEMBL cdna:known chromosome:CEL140:X:6075459:6081407:1 gene:C45B2.4 11/11 None
C45B2.4a ENSEMBL cdna:known chromosome:CEL140:X:6075582:6081791:1 gene:C45B2.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000012822 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:6076950-6081621(+) 100.0 100.0
Public Domain and Genome References
Ensembl C45B2.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAP31438 Gaba/glycine receptor family (see gbr) protein 2, isoform b [Caenorhabditis elegans] ref|NP_001024473.1| GABA/Glycine Receptor family (see gbr) family member (ggr-2) [Caenorhabditis elegans] 0.0
blast AAK68248 Gaba/glycine receptor family (see gbr) protein 2, isoform a [Caenorhabditis elegans] ref|NP_001024472.1| GABA/Glycine Receptor family (see gbr) family member (ggr-2) [Caenorhabditis elegans] 0.0
blast CAE68860 Hypothetical protein CBG14823 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 1.0E-24
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 9.7E-50
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 7.2E-10
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 3.1E-31
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 7.2E-10
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 9.7E-50
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001024473.1 1 300-322
NP_001024472.1 2 300-322,520-542
C45B2.4b.2 1 300-322
C45B2.4b.1 1 300-322
C45B2.4a 2 300-322,520-542
GENEFINDER00000012834 4 255-274,279-301,316-338,525-547
Sequence
Target Sequence 
>C. ELEGANS:189510_AT
atggcttcgtcattggaatccgttaaaagcgggaatgcagagaaaaagccatcaagggga
gatttaggtgcacatgccagacacctatttctcagacttcgaacaaacgaacgtcaacat
ttggtggaggatccacctgaacaaatagcaatgaatgacacggcttatgatacggtcagt
caagcgtacagtaacagcttctctgacgaagaggctgctccagttgtacaaccaccacaa
aatgaagacgctgaggcccaagaagaagtttgggcagaacaaaaagaaacgaatttaagc
gaagtatggaaggaaagcgatcccgctgaacgtcttgcacactggaatgaaaaagagaat
gatgcgagttccccgttaatgggaaatggaagagctcatgtgagatatggcgccgcagaa
aagatgaaaaaccgaaaatgcaatgatagcagcaggaaaaaggagaaatggagctccgct
atcaaacaaattca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGCTTCGTCATTGGAATCCGTTA 651 51 907 Antisense
GGTGCACATGCCAGACACCTATTTC 389 501 973 Antisense
GACACCTATTTCTCAGACTTCGAAC 602 367 986 Antisense
GACACGGCTTATGATACGGTCAGTC 416 359 1063 Antisense
GCGTACAGTAACAGCTTCTCTGACG 641 291 1090 Antisense
AAGAGGCTGCTCCAGTTGTACAACC 636 153 1115 Antisense
AGGAAAGCGATCCCGCTGAACGTCT 173 55 1217 Antisense
CTGAACGTCTTGCACACTGGAATGA 284 239 1232 Antisense
AAGAGAATGATGCGAGTTCCCCGTT 538 151 1259 Antisense
GCTCATGTGAGATATGGCGCCGCAG 541 299 1300 Antisense
GGAGCTCCGCTATCAAACAAATTCA 647 521 1376 Antisense
Sequence Source Affymetrix Proprietary Database