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[189838_s_at] Glutamate receptor

Description F07F6.6 /REP_DB=WormBase Gene ID /WP=CE27917 /TR=Q09532 /GB=AAC46779.2 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Glutamate receptor
Cluster 6grp_total > 07      4grp_total > 37      6grp_cgc > 20      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 80
1 2 3 4 range
A 77.3
(3)
A 		34.5
(-0.5)
A 		27
(-1.1)
A 		4.2
(-3)
A 		73
B 44.2
(3)
A 		39.6
(2.3)
A 		3.4
(-3)
A 		20.9
(-0.4)
A 		41
C 41.6
(-1.1)
A 		54.6
(0.2)
A 		22.1
(-3)
A 		83.2
(3)
A 		61
avr 54.4
(3) 		42.9
(1.1) 		17.5
(-3) 		36.1
(0) 		37

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 88
1 2 3 4 5 6 range
A 91
(3)
A 		30.4
(-1.2)
A 		35.8
(-0.8)
A 		3.4
(-3)
A 		4.3
(-2.9)
A 		26.5
(-1.4)
A 		88
B 55.3
(3)
A 		28
(-0.2)
A 		36.9
(0.9)
A 		31.8
(0.3)
A 		3.4
(-3)
A 		3.5
(-3)
A 		52
C 38.2
(3)
A 		32.4
(2)
A 		10
(-2)
A 		36.3
(2.7)
A 		4.2
(-3)
A 		25.4
(0.7)
A 		34
avr 61.5
(3) 		30.3
(-0.3) 		27.6
(-0.5) 		23.8
(-0.9) 		4
(-3) 		18.5
(-1.5) 		58
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 28
1 2 3 4 range
A 28.1
(3)
A 		7.5
(-1.5)
A 		7.1
(-1.6)
A 		0.6
(-3)
A 		28
B 14.1
(3)
A 		9.8
(1.1)
A 		0.8
(-3)
A 		4.5
(-1.3)
A 		13
C 13.8
(1.6)
A 		15.7
(3)
A 		7.7
(-3)
A 		14
(1.7)
A 		8
avr 18.7
(3) 		11
(-0.4) 		5.2
(-3) 		6.4
(-2.5) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 16.8
(3)
A 		10.8
(0.7)
A 		7.8
(-0.4)
A 		0.9
(-3)
A 		1.3
(-2.8)
A 		6.5
(-0.9)
A 		16
B 19.2
(3)
A 		9.3
(-0.3)
A 		9
(-0.4)
A 		8.4
(-0.6)
A 		1.4
(-3)
A 		1.3
(-3)
A 		18
C 14.2
(3)
A 		9.9
(1)
A 		2.5
(-2.5)
A 		7.3
(-0.2)
A 		1.4
(-3)
A 		8.5
(0.3)
A 		13
avr 16.7
(3) 		10
(0.4) 		6.4
(-1) 		5.5
(-1.4) 		1.4
(-3) 		5.4
(-1.4) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189838_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4408
Sequence Type Exemplar sequence
Representative Public ID F07F6.6 NCBI
Target Description F07F6.6 /REP_DB=WormBase Gene ID /WP=CE27917 /TR=Q09532 /GB=AAC46779.2 /SUBMIT=ST.LOUIS /CHR=2 /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_062632(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062632 NCBI Caenorhabditis elegans NMDA class glutamate receptor family member (nmr-1) (nmr-1) mRNA, complete cds. 11/11 None
F07F6.6 ENSEMBL cdna:known chromosome:CEL140:II:5440283:5446574:-1 gene:F07F6.6 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
chrII:5440282-5446572(-) 100.0 100.0
Public Domain and Genome References
Gene Title Glutamate receptor
Gene Symbol nmr-1
Ensembl F07F6.6
Entrez Gene 173929 Entrez gene
SwissProt Q9BK17 EMBL-EBI
WormBase CE30128 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:19240_AT glutamate receptor family protein (GLR3.7) (GLR5) at
ATH1-121501:266338_AT glutamate receptor family protein (GLR3.7) (GLR5) at
CANINE_2:CFA.16224.2.S1_S_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 cfa
CANINE_2:CFAAFFX.29816.1.S1_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 cfa
CANINE_2:CFAAFFX.29823.1.S1_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 cfa
DROSOPHILA_2:1641697_AT NMDA receptor 1 dm
DROSGENOME1:143612_AT NMDA receptor 1 dm
CHICKEN:GGA.12184.1.S1_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 gga
HG-U133_PLUS_2:211125_X_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U133A:211125_X_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U133A_2:211125_X_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U133_PLUS_2:205914_S_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U133A:205914_S_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-FOCUS:205914_S_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U133A_2:205914_S_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U133_PLUS_2:210782_X_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U133A:210782_X_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U133A_2:210782_X_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U133_PLUS_2:210781_X_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U133A:210781_X_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U133A_2:210781_X_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U133A_2:205915_X_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U133A:205915_X_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U133_PLUS_2:205915_X_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U95AV2:37134_F_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HUGENEFL:L13266_S_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
U133_X3P:G307302_3P_X_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
U133_X3P:G307302_3P_A_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
U133_X3P:G2343288_3P_A_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
U133_X3P:G219919_3P_A_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
U133_X3P:G11038636_3P_A_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
U133_X3P:210782_3P_X_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
HG-U95AV2:37135_F_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 hs
MU11KSUBA:D10028_S_AT glutamate receptor, ionotropic, NMDA1 (zeta 1) mm
MU11KSUBB:MSA.11871.0_AT glutamate receptor, ionotropic, NMDA1 (zeta 1) mm
MG-U74AV2:104684_AT glutamate receptor, ionotropic, NMDA1 (zeta 1) mm
MG-U74AV2:104686_AT glutamate receptor, ionotropic, NMDA1 (zeta 1) mm
MG-U74AV2:104685_G_AT glutamate receptor, ionotropic, NMDA1 (zeta 1) mm
MOE430A:1450202_AT glutamate receptor, ionotropic, NMDA1 (zeta 1) mm
MOUSE430A_2:1450202_AT glutamate receptor, ionotropic, NMDA1 (zeta 1) mm
MOUSE430_2:1450202_AT glutamate receptor, ionotropic, NMDA1 (zeta 1) mm
MOE430A:1437968_AT glutamate receptor, ionotropic, NMDA1 (zeta 1) mm
MOUSE430A_2:1437968_AT glutamate receptor, ionotropic, NMDA1 (zeta 1) mm
MOUSE430_2:1437968_AT glutamate receptor, ionotropic, NMDA1 (zeta 1) mm
RN-U34:L19708_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 rn
RG-U34A:L19708_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 rn
RN-U34:L08228EXON#22_S_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 rn
RG-U34A:L08228EXON#22_S_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 rn
RN-U34:S39221_G_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 rn
RG-U34A:S39221_G_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 rn
RN-U34:S39221_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 rn
RG-U34A:S39221_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 rn
RN-U34:U11418_S_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 rn
RG-U34A:U11418_S_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 rn
RAE230A:1368572_A_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 rn
RAT230_2:1368572_A_AT glutamate receptor, ionotropic, N-methyl D-aspartate 1 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron 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
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
5489 electron transporter activity inferred from electronic annotation QuickGO AmiGO
4972 N-methyl-D-aspartate selective glutamate receptor activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC46779 Nmda class glutamate receptor protein 1 [Caenorhabditis elegans] ref|NP_495033.2| NMDA class glutamate receptor family member (nmr-1) [Caenorhabditis elegans] gb|AAK01101.2| NMDA-type ionotropic glutamate receptor NMR-1 [Caenorhabditis elegans] 0.0
blast CAE59106 Hypothetical protein CBG02401 [Caenorhabditis briggsae] 0.0
blast EAL28500 GA15505-PA [Drosophila pseudoobscura] 1.0E-136
Protein Domains
Database ID Description E-Value
Pfam IPR001320 EMBL-EBI Ionotropic glutamate receptor 3.3E-111
Pfam IPR001828 EMBL-EBI Extracellular ligand-binding receptor 3.3E-10
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495033.2 4 567-586,653-675,840-862,971-993
F07F6.6 4 567-586,653-675,840-862,971-993
Sequence
Target Sequence 
>C. ELEGANS:189838_S_AT
gagtttcgtcgaggtttcttatggaagacggctagctgataaagggcgtcgccgaagaat
tgttacccggtatttccaaaaatggcatgacctcacactcggaaaaaagcgacgtcccta
tcgattgaaatataatttagatcgaatgattgttaggagaggattctcaggtcttgagcg
gtgttcattccaagaattacgagaacgaaggcaaattcgaggcctaccaacgtcaaaagt
cgatccatattgcttttggcctgatttagattttaaagataaacctttggttttgttttg
ttcaagatgtaggaacatcgtggaatcagatgtgcatcgcgaaacgggtctctttgcttt
tctctcgtgttttctgtttgcaattctctttctgtggccatgctctccacttccttgctt
tttgagctcattcagtgattttgtgcacatttgtccattgtgttctcatatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGTTTCGTCGAGGTTTCTTATGGA 659 397 2445 Antisense
GGCGTCGCCGAAGAATTGTTACCCG 436 483 2489 Antisense
GCATGACCTCACACTCGGAAAAAAG 369 309 2529 Antisense
AAAAGCGACGTCCCTATCGATTGAA 501 131 2549 Antisense
TCAGGTCTTGAGCGGTGTTCATTCC 446 621 2611 Antisense
CAAATTCGAGGCCTACCAACGTCAA 651 187 2656 Antisense
GTCGATCCATATTGCTTTTGGCCTG 335 473 2683 Antisense
TGCATCGCGAAACGGGTCTCTTTGC 252 575 2777 Antisense
TTCTGTTTGCAATTCTCTTTCTGTG 582 693 2816 Antisense
ACTTCCTTGCTTTTTGAGCTCATTC 69 105 2853 Antisense
CATTTGTCCATTGTGTTCTCATATT 390 215 2892 Antisense
Sequence Source Affymetrix Proprietary Database