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[189617_at] glutamate receptor

Description K10D3.1 /REP_DB=WormBase Gene ID /WP=CE06170 /TR=Q21415 /GB=CAA99883.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=glutamate receptor
Cluster 6grp_total > 34      4grp_total > 20      6grp_cgc > 80      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 55
1 2 3 4 range
A 11.9
(-1.7)
A 		35.5
(2.3)
A 		4
(-3)
A 		39.5
(3)
A 		36
B 32.2
(3)
A 		4.8
(-2.4)
A 		1.8
(-3)
A 		3.6
(-2.6)
A 		30
C 10
(-2.4)
A 		5.1
(-3)
A 		5.4
(-3)
A 		56.8
(3)
A 		52
avr 18
(-0.1) 		15.1
(-0.7) 		3.7
(-3) 		33.3
(3) 		30

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 29.1
(3)
A 		20.1
(0.9)
A 		29
(3)
A 		3.9
(-2.8)
A 		7.2
(-2)
A 		2.9
(-3)
A 		26
B 4.4
(-2.6)
A 		4.7
(-2.5)
A 		23.4
(3)
A 		5
(-2.4)
A 		3.7
(-2.8)
A 		3.1
(-3)
A 		20
C 20.7
(3)
A 		18.3
(2.2)
A 		10
(-0.5)
A 		4
(-2.5)
A 		2.5
(-3)
A 		9.4
(-0.7)
A 		18
avr 18.1
(2) 		14.4
(0.7) 		20.8
(3) 		4.3
(-3) 		4.5
(-2.9) 		5.1
(-2.7) 		17
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 4.3
(-0.1)
A 		7.7
(3)
A 		1.1
(-3)
A 		5.8
(1.3)
A 		7
B 10.3
(3)
A 		1.2
(-2.5)
A 		0.4
(-3)
A 		0.8
(-2.8)
A 		10
C 3.3
(-1.7)
A 		1.5
(-3)
A 		1.9
(-2.7)
A 		9.6
(3)
A 		8
avr 6
(3) 		3.5
(-0.1) 		1.1
(-3) 		5.4
(2.3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7
1 2 3 4 5 6 range
A 5.4
(1.4)
A 		7.1
(3)
A 		6.3
(2.3)
A 		1
(-2.7)
A 		2.2
(-1.6)
A 		0.7
(-3)
A 		6
B 1.5
(-2.6)
A 		1.6
(-2.5)
A 		5.7
(3)
A 		1.3
(-2.9)
A 		1.5
(-2.6)
A 		1.2
(-3)
A 		5
C 7.7
(3)
A 		5.6
(1.2)
A 		2.5
(-1.5)
A 		0.8
(-3)
A 		0.8
(-3)
A 		3.1
(-1)
A 		7
avr 4.9
(3) 		4.8
(2.8) 		4.8
(2.8) 		1
(-3) 		1.5
(-2.2) 		1.7
(-1.9) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189617_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.483
Sequence Type Exemplar sequence
Representative Public ID K10D3.1 NCBI
Target Description K10D3.1 /REP_DB=WormBase Gene ID /WP=CE06170 /TR=Q21415 /GB=CAA99883.1 /SUBMIT=HINXTON /CHR=1 /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 Genome Consensus/Exemplar Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade C annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_059616
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059616 NCBI Caenorhabditis elegans GLutamate Receptor family (AMPA) family member (glr-3) (glr-3) mRNA, complete cds. None
K10D3.1 ENSEMBL cdna:known chromosome:CEL140:I:7125940:7129677:1 gene:K10D3.1 None
GENEFINDER00000021182 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:7125940:7129937:1 None
SNAP00000021170 ENSEMBL cdna:SNAP chromosome:CEL140:I:7126128:7129677:1 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
chrI:7125870-7130281(+) 100.0 100.0
Public Domain and Genome References
Gene Title glutamate receptor
Gene Symbol glr-3
Ensembl K10D3.1
Entrez Gene 172449 Entrez gene
SwissProt Q21415 EMBL-EBI
WormBase CE36553 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:16122_S_AT glutamate receptor family protein (GLR3.1) (GLR2) at
ATH1-121501:264853_AT glutamate receptor family protein (GLR3.1) (GLR2) at
CANINE_2:CFAAFFX.13901.1.S1_S_AT similar to Glutamate receptor, ionotropic kainate 1 precursor (Glutamate receptor 5) (GluR-5) (GluR5) cfa
CANINE_2:CFAAFFX.13909.1.S1_AT similar to Glutamate receptor, ionotropic kainate 1 precursor (Glutamate receptor 5) (GluR-5) (GluR5) cfa
DROSOPHILA_2:1634462_AT dm
DROSGENOME1:150283_AT dm
CHICKEN:GGAAFFX.10082.3.S1_AT similar to Glutamate receptor, ionotropic, kainate 1 isoform 1 precursor; excitatory amino acid receptor 3 gga
CHICKEN:GGAAFFX.10082.3.S1_S_AT similar to Glutamate receptor, ionotropic, kainate 1 isoform 1 precursor; excitatory amino acid receptor 3 gga
CHICKEN:GGAAFFX.10082.6.S1_S_AT similar to Glutamate receptor, ionotropic, kainate 1 isoform 1 precursor; excitatory amino acid receptor 3 gga
HG-U95AV2:35857_AT glutamate receptor, ionotropic, kainate 1 hs
HG-U133_PLUS_2:207242_S_AT glutamate receptor, ionotropic, kainate 1 hs
HG-U133A:207242_S_AT glutamate receptor, ionotropic, kainate 1 hs
HG-U133A_2:207242_S_AT glutamate receptor, ionotropic, kainate 1 hs
HU35KSUBB:RC_F03081_S_AT glutamate receptor, ionotropic, kainate 1 hs
HU35KSUBD:RC_AA404271_AT glutamate receptor, ionotropic, kainate 1 hs
HUGENEFL:L19058_AT glutamate receptor, ionotropic, kainate 1 hs
U133_X3P:G4504116_3P_X_AT glutamate receptor, ionotropic, kainate 1 hs
U133_X3P:G4504116_3P_A_AT glutamate receptor, ionotropic, kainate 1 hs
U133_X3P:HS.181581.1.S2_3P_AT glutamate receptor, ionotropic, kainate 1 hs
HG-U133A_2:214611_AT glutamate receptor, ionotropic, kainate 1 hs
HG-FOCUS:214611_AT glutamate receptor, ionotropic, kainate 1 hs
HG-U133_PLUS_2:214611_AT glutamate receptor, ionotropic, kainate 1 hs
HG-U133A:214611_AT glutamate receptor, ionotropic, kainate 1 hs
HG-U95AV2:35855_S_AT glutamate receptor, ionotropic, kainate 1 hs
HG-U95AV2:35856_R_AT glutamate receptor, ionotropic, kainate 1 hs
U133_X3P:HS2.369573.1.S1_3P_AT Glutamate receptor, ionotropic, kainate 1 hs
HG-U133_PLUS_2:1559923_AT Glutamate receptor, ionotropic, kainate 1 hs
HG-U133_PLUS_2:1560378_AT Glutamate receptor, ionotropic, kainate 1 hs
HG-U133_PLUS_2:243375_AT Glutamate receptor, ionotropic, kainate 1 hs
HG-U133B:243375_AT Glutamate receptor, ionotropic, kainate 1 hs
HG-U95C:64955_AT Glutamate receptor, ionotropic, kainate 1 hs
HG-U95C:66248_AT Glutamate receptor, ionotropic, kainate 1 hs
HG-U95C:66372_AT Glutamate receptor, ionotropic, kainate 1 hs
HG-U95E:70885_AT Glutamate receptor, ionotropic, kainate 1 hs
HG-U95D:72690_AT Glutamate receptor, ionotropic, kainate 1 hs
HG-U95D:81132_AT Glutamate receptor, ionotropic, kainate 1 hs
U133_X3P:HS2.222405.1.A1_3P_AT Glutamate receptor, ionotropic, kainate 1 hs
U133_X3P:HS2.222405.1.A1_3P_S_AT Glutamate receptor, ionotropic, kainate 1 hs
U133_X3P:HS.210347.0.A1_3P_AT Glutamate receptor, ionotropic, kainate 1 hs
MOE430B:1439987_AT glutamate receptor, ionotropic, kainate 1 mm
MOUSE430_2:1439987_AT glutamate receptor, ionotropic, kainate 1 mm
MOE430A:1427676_A_AT Glutamate receptor, ionotropic, kainate 1 (Grik1), mRNA mm
MOUSE430A_2:1427676_A_AT Glutamate receptor, ionotropic, kainate 1 (Grik1), mRNA mm
MOUSE430_2:1427676_A_AT Glutamate receptor, ionotropic, kainate 1 (Grik1), mRNA mm
MU11KSUBB:X66118_S_AT Glutamate receptor, ionotropic, kainate 1 (Grik1), mRNA mm
MG-U74AV2:93132_AT Glutamate receptor, ionotropic, kainate 1 (Grik1), mRNA mm
RN-U34:M83561_S_AT glutamate receptor, ionotropic, kainate 1 rn
RG-U34A:M83561_S_AT glutamate receptor, ionotropic, kainate 1 rn
RG-U34C:RC_AI111480_AT glutamate receptor, ionotropic, kainate 1 rn
RAE230A:1387309_A_AT glutamate receptor, ionotropic, kainate 1 rn
RAT230_2:1387309_A_AT glutamate receptor, ionotropic, kainate 1 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
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
GO Molecular Function (view graph)
ID Description Evidence Links
4872 receptor activity inferred from electronic annotation QuickGO AmiGO
4970 ionotropic glutamate receptor activity inferred from electronic annotation QuickGO AmiGO
5216 ion channel 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 CAA99883 Hypothetical protein K10D3.1 [Caenorhabditis elegans] ref|NP_492017.3| GLutamate Receptor family (AMPA) family member (glr-3) [Caenorhabditis elegans] 0.0
blast CAE74239 Hypothetical protein CBG21924 [Caenorhabditis briggsae] 0.0
blast AAK01095 ionotropic glutamate receptor GLR-3 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001320 EMBL-EBI Ionotropic glutamate receptor 1.5E-122
Pfam IPR001320 EMBL-EBI Ionotropic glutamate receptor 6.5E-119
Pfam IPR001320 EMBL-EBI Ionotropic glutamate receptor 1.5E-122
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492017.3 3 525-544,601-623,781-803
K10D3.1 3 525-544,601-623,781-803
GENEFINDER00000021182 3 510-529,586-608,766-788
SNAP00000021170 3 449-468,529-551,709-731
Sequence
Target Sequence 
>C. ELEGANS:189617_AT
attcttgttgttggtcttgtcttgactgcagttctagttatctttgagctaatcacaaca
agaaaaccatctcctgctcaatcacaagttattcgtcatgtcaatgttattccttcattt
aaattaggatttttccgatggaatagtttctcgatacgaggtttttttttaaatatttta
gcactaaacattataaaaaaggaccaaaatgtattaatctcgttgccaaccatgggtaaa
aattataattttaacaaagtttttcaaaacttttctcttatgagaccttttttaaatttg
tcaaagtttatttattattccattctcaaactcagtcttttggagtcattttcagttttt
agaacgctacttcaatttcaactaaaaaaactttacaagaaaataggaattttatctaaa
tcacaggaactcacctacaacagcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCTTGTTGTTGGTCTTGTCTTGA 668 11 2383 Antisense
GGTCTTGTCTTGACTGCAGTTCTAG 495 503 2395 Antisense
CTGCAGTTCTAGTTATCTTTGAGCT 491 237 2408 Antisense
CATCTCCTGCTCAATCACAAGTTAT 135 213 2450 Antisense
TCGTCATGTCAATGTTATTCCTTCA 272 601 2475 Antisense
GATGGAATAGTTTCTCGATACGAGG 177 407 2519 Antisense
AATGTATTAATCTCGTTGCCAACCA 501 163 2590 Antisense
TATTCCATTCTCAAACTCAGTCTTT 219 665 2698 Antisense
CAGTCTTTTGGAGTCATTTTCAGTT 429 207 2715 Antisense
TAGAACGCTACTTCAATTTCAACTA 220 651 2742 Antisense
TCACAGGAACTCACCTACAACAGCC 602 627 2803 Antisense
Sequence Source Affymetrix Proprietary Database