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[189808_at]

Description Y4C6A.2 /REP_DB=WormBase Gene ID /WP=CE24396 /TR=Q9N4T8 /GB=AAF60738.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=glutamate receptor
Cluster 6grp_highest_10_10 > 52      6grp_high1_10_10 > 15      4grp_highest_8_8 > 54      4grp_high_8_8 > 18      6grp_highest_nonorm > 80      6grp_total > 15      4grp_total > 22      6grp_highest_sub > 01_02      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 231
1 2 3 4 range
A 260.3
(0.3)
P 		196.9
(-1.8)
P 		160.8
(-3)
P 		340
(3)
P 		179
B 301.6
(3)
P 		202.5
(-0.1)
P 		109.4
(-3)
P 		246.6
(1.3)
P 		192
C 334.3
(3)
P 		173.8
(-1.6)
P 		127.2
(-3)
P 		261.6
(0.9)
P 		207
avr 298.7
(3) 		191.1
(-0.9) 		132.5
(-3) 		282.7
(2.4) 		166

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 185
1 2 3 4 5 6 range
A 290.4
(2.4)
P 		308.2
(3)
P 		150.4
(-2.3)
P 		146
(-2.4)
P 		150.4
(-2.3)
P 		129
(-3)
P 		179
B 264.9
(3)
P 		206.9
(0.5)
P 		148.3
(-1.9)
P 		130.3
(-2.7)
P 		123.5
(-3)
P 		124.5
(-3)
P 		141
C 256.5
(1.3)
P 		306.6
(3)
P 		168.8
(-1.6)
P 		171.8
(-1.5)
P 		150.7
(-2.2)
P 		126.9
(-3)
P 		180
avr 270.6
(2.9) 		273.9
(3) 		155.8
(-1.8) 		149.4
(-2.1) 		141.5
(-2.4) 		126.8
(-3) 		147
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 85
1 2 3 4 range
A 94.8
(3)
P 		42.8
(-2.9)
P 		42
(-3)
P 		49.8
(-2.1)
P 		53
B 96.2
(3)
P 		50
(-0.9)
P 		25.4
(-3)
P 		52.6
(-0.7)
P 		71
C 110.7
(3)
P 		50
(-2.5)
P 		44.3
(-3)
P 		44.1
(-3)
P 		67
avr 100.6
(3) 		47.6
(-2) 		37.2
(-3) 		48.8
(-1.9) 		63

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 78
1 2 3 4 5 6 range
A 53.5
(-1.3)
P 		109.6
(3)
P 		32.8
(-2.9)
P 		37
(-2.6)
P 		45.4
(-1.9)
P 		31.4
(-3)
P 		78
B 92.2
(3)
P 		68.9
(0.6)
P 		36
(-2.8)
P 		34.5
(-3)
P 		50.2
(-1.4)
P 		46.4
(-1.8)
P 		58
C 95.1
(3)
P 		93.5
(2.8)
P 		43
(-2.2)
P 		34.5
(-3)
P 		48.7
(-1.6)
P 		42.5
(-2.2)
P 		61
avr 80.3
(1.9) 		90.7
(3) 		37.3
(-2.8) 		35.3
(-3) 		48.1
(-1.6) 		40.1
(-2.5) 		55
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189808_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11110
Sequence Type Exemplar sequence
Representative Public ID Y4C6A.2 NCBI
Target Description Y4C6A.2 /REP_DB=WormBase Gene ID /WP=CE24396 /TR=Q9N4T8 /GB=AAF60738.1 /SUBMIT=ST.LOUIS /CHR=4 /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_171341(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171341 NCBI Caenorhabditis elegans Y4C6A.2a (Y4C6A.2) mRNA, complete cds. 11/11 None
SNAP00000043993 ENSEMBL cdna:SNAP chromosome:CEL140:IV:5439062:5450631:1 11/11 None
GENEFINDER00000044006 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:5439062:5450631:1 11/11 None
Y4C6A.2a ENSEMBL cdna:known chromosome:CEL140:IV:5439062:5450779:1 gene:Y4C6A.2 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
177327 2 1 NM_171341 189808_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:5439067-5447269(+) 99.04 100.0
Public Domain and Genome References
Ensembl Y4C6A.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM97973 Hypothetical protein Y4C6A.2a [Caenorhabditis elegans] ref|NP_741400.1| Y4C6A.2a [Caenorhabditis elegans] 0.0
blast CAE72708 Hypothetical protein CBG19941 [Caenorhabditis briggsae] 0.0
blast AAM97974 Hypothetical protein Y4C6A.2b [Caenorhabditis elegans] ref|NP_741401.1| Y4C6A.2b [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001828 EMBL-EBI Extracellular ligand-binding receptor 1.1E-50
Pfam IPR000337 EMBL-EBI G-protein coupled receptor family 3, metabotropic glutamate receptor-like 3.6E-95
Pfam IPR000337 EMBL-EBI G-protein coupled receptor family 3, metabotropic glutamate receptor-like 3.6E-95
Pfam IPR001828 EMBL-EBI Extracellular ligand-binding receptor 1.7E-56
Pfam IPR000337 EMBL-EBI G-protein coupled receptor family 3, metabotropic glutamate receptor-like 3.6E-95
Pfam IPR001828 EMBL-EBI Extracellular ligand-binding receptor 1.1E-50
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_741400.1 7 616-638,651-670,675-697,722-744,767-789,802-824,839-861
Y4C6A.2a 7 616-638,651-670,675-697,722-744,767-789,802-824,839-861
SNAP00000043993 7 580-602,615-634,639-661,686-708,731-753,766-788,803-825
GENEFINDER00000044006 7 590-612,625-644,649-671,696-718,741-763,776-798,813-835
Sequence
Target Sequence 
>C. ELEGANS:189808_AT
gctacactttgacatttttcttggtttctcagccgactgttatcacatgctcaatgactc
ggattctaatgggtctatcaatgtcagccatttatgcagcaatcatcacaaaaactaatc
gacttgcacgagtattcaaaccagattctgcacaaagaccgaggtttatcactccaaaag
ctcaggttggaatttgcatgggaatagtatctgttcaactgatcggaacatttgtctgga
tactattcgatccacctggcacaatgattgtatttccaacaagaactgaagcagtattaa
cttgtaaagcaacaacttctcatctccttatatctctgctctacaacattttgctaattg
tcgcctgcactgtgtatgccttcaaaacacggaaaataccggaaaatttcaatgaaacac
gacatattggatttacaatgtattccacgtgtattctttggcttgcattcggtccgattt
attttgcgacacagagtgatttcaggattcaaataacatcattgtgcatgtgcatatcac
tttctggaacagttgcacttatttgcttttttgctccaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTACACTTTGACATTTTTCTTGGT 393 301 1997 Antisense
TGGTTTCTCAGCCGACTGTTATCAC 698 551 2018 Antisense
ATCACATGCTCAATGACTCGGATTC 630 27 2038 Antisense
GAGGTTTATCACTCCAAAAGCTCAG 88 403 2157 Antisense
TACTATTCGATCCACCTGGCACAAT 384 643 2237 Antisense
AAAGCAACAACTTCTCATCTCCTTA 699 123 2302 Antisense
TCCTTATATCTCTGCTCTACAACAT 166 593 2321 Antisense
CTAATTGTCGCCTGCACTGTGTATG 298 227 2350 Antisense
CACGTGTATTCTTTGGCTTGCATTC 471 199 2442 Antisense
GTGCATGTGCATATCACTTTCTGGA 298 481 2520 Antisense
GCACTTATTTGCTTTTTTGCTCCAA 328 317 2551 Antisense
Sequence Source Affymetrix Proprietary Database