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[184545_at]

Description Y46G5A.26 /REP_DB=WormBase Gene ID /WP=CE24298 /TR=Q9U2E2 /GB=CAB60369.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 12      4grp_total > 54      6grp_total_sub > Hat      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 97
1 2 3 4 range
A 92.3
(3)
P 		81
(0.8)
A 		61.1
(-3)
A 		80.9
(0.8)
A 		31
B 110.6
(3)
P 		53.2
(-0.7)
A 		42.9
(-1.4)
A 		17.4
(-3)
A 		93
C 111
(3)
P 		58.1
(-0.3)
A 		50.2
(-0.8)
A 		14
(-3)
A 		97
avr 104.6
(3) 		64.1
(-0.6) 		51.4
(-1.8) 		37.4
(-3) 		67

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 96
1 2 3 4 5 6 range
A 93.4
(2.2)
P 		105.6
(3)
P 		89.3
(1.9)
M 		66.3
(0.3)
A 		91.1
(2)
A 		18.6
(-3)
A 		87
B 66
(-0.9)
A 		114.1
(3)
M 		61.1
(-1.3)
M 		100.3
(1.9)
A 		63.7
(-1.1)
P 		39.8
(-3)
A 		74
C 94.5
(2.9)
P 		95.4
(3)
A 		91.8
(2.6)
A 		91.5
(2.6)
A 		45
(-2.6)
A 		41.6
(-3)
A 		54
avr 84.6
(1.3) 		105
(3) 		80.7
(1) 		86
(1.4) 		66.6
(-0.2) 		33.3
(-3) 		72
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 34
1 2 3 4 range
A 33.6
(3)
P 		17.6
(-1.4)
A 		16
(-1.8)
A 		11.8
(-3)
A 		22
B 35.3
(3)
P 		13.1
(-1.2)
A 		9.9
(-1.8)
A 		3.7
(-3)
A 		32
C 36.7
(3)
P 		16.7
(-0.5)
A 		17.5
(-0.4)
A 		2.4
(-3)
A 		34
avr 35.2
(3) 		15.8
(-1) 		14.5
(-1.3) 		6
(-3) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 34
1 2 3 4 5 6 range
A 17.2
(-0.7)
P 		37.5
(3)
P 		19.4
(-0.3)
M 		16.8
(-0.8)
A 		27.5
(1.2)
A 		4.5
(-3)
A 		33
B 23
(-0.9)
A 		38
(3)
M 		14.8
(-3)
M 		26.6
(0.1)
A 		25.9
(-0.1)
P 		14.8
(-3)
A 		23
C 35
(3)
P 		29.1
(1.3)
A 		23.4
(-0.3)
A 		18.4
(-1.7)
A 		14.6
(-2.8)
A 		13.9
(-3)
A 		21
avr 25.1
(0.5) 		34.9
(3) 		19.2
(-1) 		20.6
(-0.6) 		22.7
(-0.1) 		11.1
(-3) 		24
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184545_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3884
Sequence Type Exemplar sequence
Representative Public ID Y46G5A.26 NCBI
Target Description Y46G5A.26 /REP_DB=WormBase Gene ID /WP=CE24298 /TR=Q9U2E2 /GB=CAB60369.1 /SUBMIT=HINXTON /CHR=2 /FEA=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_001027267(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027267 NCBI Caenorhabditis elegans Y46G5A.26a (Y46G5A.26) mRNA, complete cds. 11/11 None
SNAP00000039008 ENSEMBL cdna:SNAP chromosome:CEL140:II:12837172:12841972:-1 9/11 None
GENEFINDER00000039016 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:12832812:12841972:-1 11/11 None
Y46G5A.26a ENSEMBL cdna:known chromosome:CEL140:II:12836465:12840054:-1 gene:Y46G5A.26 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
189960 2 1 NM_001027267 184545_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:12837956-12839813(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y46G5A.26
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB60369 Hypothetical protein Y46G5A.26a [Caenorhabditis elegans] ref|NP_001022438.1| Y46G5A.26a [Caenorhabditis elegans] 0.0
blast CAB60368 Hypothetical protein Y46G5A.25 [Caenorhabditis elegans] ref|NP_496730.2| Sodium:Neurotransmitter symporter Family family member (snf-4) [Caenorhabditis elegans] 0.0
blast CAB60369 Hypothetical protein Y46G5A.26a [Caenorhabditis elegans] ref|NP_001022438.1| Y46G5A.26a [Caenorhabditis elegans] 1.0E-172
blast CAE71492 Hypothetical protein CBG18417 [Caenorhabditis briggsae] 1.0E-154
blast CAE71492 Hypothetical protein CBG18417 [Caenorhabditis briggsae] 1.0E-149
blast AAQ96594 excitatory GABA receptor EXP-1A [Caenorhabditis elegans] 1.0E-141
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 8.1E-9
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 3.0E-65
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.9E-23
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.6E-24
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 8.1E-9
Pfam IPR000175 EMBL-EBI Sodium:neurotransmitter symporter 2.6E-22
Pfam IPR000175 EMBL-EBI Sodium:neurotransmitter symporter 1.2E-76
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 2.8E-59
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001022438.1 5 15-34,287-309,319-336,348-367,469-491
Y46G5A.26a 5 15-34,287-309,319-336,348-367,469-491
SNAP00000039008 2 334-356,366-383
GENEFINDER00000039016 15 490-512,525-547,552-571,584-606,673-695,927-949,964-986,1031-1053,1080-1102,1114-1136,1172-1194,1214-1236,1246-1268,1294-1316,1331-1353
Sequence
Target Sequence 
>C. ELEGANS:184545_AT
ttacagcaggcggctctcgttgatactcacttgtgggatggacctaactctattcccatt
cgacacccagctgtgcaagatgggattcgagagttatggttacaccgcagacaaggtcaa
gtatctgtggtctactggagctatccagtcgctgaagcttcataagattcggctgccaga
ttttcaggtcaaggaggcttatgtgacaagtcgtgtggaaagttatgcgacaggtgacta
ttctcgtctatacgtgtgcttcgtattcaatcgagcagccggcttctgcttcctgcagct
aattattccctctacagccgtcgtcattacgtcctgggtttctttgtggatggagaatga
gacttcattccaagacatgatctctattatcctgacgattactttcctgctcttctcgta
taatgaagttatgccacgtgttagttatatcaaagcgatggatgtttatttagtaggctt
ttcaggagtttgcttttgcatcgtatttctgtcact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTACAGCAGGCGGCTCTCGTTGATA 632 683 438 Antisense
GATGGACCTAACTCTATTCCCATTC 387 405 474 Antisense
CATTCGACACCCAGCTGTGCAAGAT 238 217 494 Antisense
GTATCTGTGGTCTACTGGAGCTATC 253 455 558 Antisense
GATTCGGCTGCCAGATTTTCAGGTC 132 433 603 Antisense
GCGACAGGTGACTATTCTCGTCTAT 214 289 664 Antisense
TCAATCGAGCAGCCGGCTTCTGCTT 423 633 704 Antisense
TGCAGCTAATTATTCCCTCTACAGC 575 577 731 Antisense
GTCATTACGTCCTGGGTTTCTTTGT 696 421 760 Antisense
TTATCCTGACGATTACTTTCCTGCT 411 681 824 Antisense
GCTTTTGCATCGTATTTCTGTCACT 379 305 929 Antisense
Sequence Source Affymetrix Proprietary Database