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[189837_at] glutamate receptor

Description F22A3.3 /REP_DB=WormBase Gene ID /WP=CE27990 /TR=Q19693 /GB=AAA83192.2 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=glutamate receptor
Cluster 6grp_total > 04      4grp_total > 23      6grp_cgc > 41      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 51
1 2 3 4 range
A 50.8
(-0.4)
A 		56
(0.7)
A 		66.4
(3)
A 		39.1
(-3)
A 		27
B 71.3
(2.6)
A 		58.4
(-0.6)
A 		48.8
(-3)
A 		72.8
(3)
A 		24
C 90.2
(3)
A 		53
(-2.9)
A 		52.1
(-3)
A 		85
(2.2)
A 		38
avr 70.8
(3) 		55.8
(-3) 		55.8
(-3) 		65.6
(0.9) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 123
1 2 3 4 5 6 range
A 57.2
(-1.4)
A 		85.8
(3)
A 		46.9
(-3)
A 		50.5
(-2.4)
A 		84.7
(2.8)
A 		48.7
(-2.7)
A 		39
B 126.2
(3)
A 		89.7
(0.4)
A 		49.4
(-2.4)
A 		43.2
(-2.8)
A 		44.9
(-2.7)
A 		40.9
(-3)
A 		85
C 79.3
(3)
A 		76.9
(2.8)
A 		50.2
(0.7)
A 		69.9
(2.3)
A 		6.5
(-2.7)
A 		3.2
(-3)
A 		76
avr 87.6
(3) 		84.1
(2.6) 		48.8
(-1.1) 		54.5
(-0.5) 		45.4
(-1.5) 		30.9
(-3) 		57
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 24
1 2 3 4 range
A 18.5
(3)
A 		12.2
(0)
A 		17.4
(2.5)
A 		5.7
(-3)
A 		13
B 22.7
(3)
A 		14.4
(-1.4)
A 		11.3
(-3)
A 		15.5
(-0.8)
A 		11
C 29.9
(3)
A 		15.2
(-2.7)
A 		18.2
(-1.5)
A 		14.3
(-3)
A 		16
avr 23.7
(3) 		13.9
(-1.9) 		15.6
(-1.1) 		11.8
(-3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 43
1 2 3 4 5 6 range
A 10.5
(-2.9)
A 		30.5
(3)
A 		10.2
(-3)
A 		12.8
(-2.2)
A 		25.5
(1.5)
A 		11.9
(-2.5)
A 		20
B 43.9
(3)
A 		29.8
(0.4)
A 		12
(-2.9)
A 		11.4
(-3)
A 		18.2
(-1.7)
A 		15.3
(-2.3)
A 		33
C 29.4
(3)
A 		23.5
(1.7)
A 		12.8
(-0.5)
A 		14.1
(-0.2)
A 		2.1
(-2.8)
A 		1.1
(-3)
A 		28
avr 27.9
(3) 		27.9
(3) 		11.7
(-2.3) 		12.8
(-1.9) 		15.3
(-1.1) 		9.4
(-3) 		19
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189837_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17152
Sequence Type Exemplar sequence
Representative Public ID F22A3.3 NCBI
Target Description F22A3.3 /REP_DB=WormBase Gene ID /WP=CE27990 /TR=Q19693 /GB=AAA83192.2 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=glutamate 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_076696(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076696 NCBI Caenorhabditis elegans GLutamate Receptor family (AMPA) family member (glr-8) (glr-8) mRNA, complete cds. 11/11 None
SNAP00000004707 ENSEMBL cdna:SNAP chromosome:CEL140:X:6506860:6509819:1 11/11 None
F22A3.3 ENSEMBL cdna:known chromosome:CEL140:X:6506839:6509837:1 gene:F22A3.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000004721 5/11 Cross Hyb Matching Probes None
GENEFINDER00000004716 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:6507223-6509819(+) 100.0 100.0
Public Domain and Genome References
Gene Title glutamate receptor
Gene Symbol glr-8
Ensembl F22A3.3
Entrez Gene 180924 Entrez gene
SwissProt Q19693 EMBL-EBI
WormBase CE27990 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4970 ionotropic glutamate receptor activity inferred from electronic annotation QuickGO AmiGO
5234 glutamate-gated ion channel activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_509097 GLutamate Receptor family (AMPA) family member (glr-8) [Caenorhabditis elegans] gb|AAA83192.2| Glutamate receptor family (ampa) protein 8 [Caenorhabditis elegans] 0.0
blast AAK01100 ionotropic glutamate receptor GLR-8 [Caenorhabditis elegans] 0.0
blast CAE61271 Hypothetical protein CBG05086 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
scop a.1.1.Globins All alpha proteins; Globin-like; Globin-like; Globins 8.19999980926514
Pfam IPR001320 EMBL-EBI Ionotropic glutamate receptor 8.2E-81
Pfam IPR001320 EMBL-EBI Ionotropic glutamate receptor 7.9E-28
Pfam IPR001320 EMBL-EBI Ionotropic glutamate receptor 4.0E-39
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509097.1 3 137-159,201-223,395-417
F22A3.3 3 137-159,201-223,395-417
SNAP00000004707 3 130-152,194-216,403-425
Sequence
Target Sequence 
>C. ELEGANS:189837_AT
ggatatgcacttcttggaccaatggccacactgaacttttacgcgtattccgattgtaaa
gtgatactctttaatgacggaattttgcctgtttacctttccattcctcttgtgaaaaac
tcaatttattcgccgtatttctcaacaaaaattcgagaaatggttgaacgaggtttcaca
caaaaatggatagcagactacagatcctacgttgctatgcagaaaataaatgagtgcaac
tctaccaccatcggtccgaaaagttacttggatttgaaacgtgcccagggagcattttgg
gtttttcttggtggtgctggacttggtttagctcttttcgttggcgagtttatattcaaa
tttttcagagaaaagatgacgaaacacacgaagacaacaactgtgcccccagaagttgca
acagtttctgcgaatgtagctgaaaactctactagtttagatatcccagatgaagttctg
ccttctgcacctttaccgagtgaagatgggaactggagtttacgccgtcga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATATGCACTTCTTGGACCAATGG 63 511 634 Antisense
GCCACACTGAACTTTTACGCGTATT 546 277 658 Antisense
TGACGGAATTTTGCCTGTTTACCTT 339 571 708 Antisense
TACCTTTCCATTCCTCTTGTGAAAA 163 649 727 Antisense
AATTTATTCGCCGTATTTCTCAACA 99 175 756 Antisense
GACTACAGATCCTACGTTGCTATGC 538 373 829 Antisense
AATGAGTGCAACTCTACCACCATCG 617 163 862 Antisense
CTGGACTTGGTTTAGCTCTTTTCGT 361 241 950 Antisense
ACTGTGCCCCCAGAAGTTGCAACAG 85 97 1033 Antisense
CCTTCTGCACCTTTACCGAGTGAAG 536 269 1114 Antisense
TGGGAACTGGAGTTTACGCCGTCGA 293 549 1140 Antisense
Sequence Source Affymetrix Proprietary Database