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[172437_x_at]

Description R09B5.3 /REP_DB=WormBase Gene ID /WP=CE12622 /TR=O44611 /GB=AAB94212.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 72      6grp_high1_10_10 > 37      6grp_highest_nonorm > 70      6grp_total > 17      4grp_total > 29      6grp_highest_sub > Cu      6grp_cgc > 06      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 71
1 2 3 4 range
A 56.4
(3)
P 		35.5
(0.6)
A 		5.1
(-3)
A 		41.9
(1.3)
A 		51
B 53.4
(1.8)
P 		32.4
(-1.9)
A 		26.1
(-3)
A 		60.4
(3)
P 		34
C 57
(1.3)
A 		72.4
(2.7)
P 		7.3
(-3)
A 		76.2
(3)
P 		69
avr 55.6
(2.5) 		46.8
(1.4) 		12.8
(-3) 		59.5
(3) 		47

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 534
1 2 3 4 5 6 range
A 324.1
(3)
P 		212.3
(0.2)
P 		248.3
(1.1)
P 		181.6
(-0.6)
P 		87
(-3)
P 		259.5
(1.4)
P 		237
B 389.3
(3)
P 		325.6
(1.5)
P 		263.1
(0)
P 		132.9
(-3)
P 		141.3
(-2.8)
P 		164.7
(-2.3)
P 		256
C 620.7
(3)
P 		268.5
(-1.4)
P 		171.8
(-2.6)
P 		140.2
(-3)
P 		139.3
(-3)
P 		288.7
(-1.1)
P 		481
avr 444.7
(3) 		268.8
(-0.3) 		227.7
(-1) 		151.6
(-2.5) 		122.5
(-3) 		237.6
(-0.9) 		322
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 20.5
(3)
P 		7.7
(-1)
A 		1.3
(-3)
A 		6.1
(-1.5)
A 		19
B 17
(3)
P 		8
(-1.9)
A 		6
(-3)
A 		12.9
(0.8)
P 		11
C 18.9
(2.4)
A 		20.8
(3)
P 		2.5
(-3)
A 		12.8
(0.4)
P 		18
avr 18.8
(3) 		12.2
(0.4) 		3.3
(-3) 		10.6
(-0.2) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 204
1 2 3 4 5 6 range
A 59.7
(1.1)
P 		75.5
(3)
P 		54.1
(0.4)
P 		46.1
(-0.6)
P 		26.2
(-3)
P 		63.2
(1.5)
P 		49
B 135.5
(3)
P 		108.4
(1.4)
P 		63.9
(-1.3)
P 		35.2
(-3)
P 		57.4
(-1.7)
P 		61.4
(-1.4)
P 		100
C 230.1
(3)
P 		81.9
(-1.4)
P 		43.7
(-2.5)
P 		28.2
(-3)
P 		45.1
(-2.5)
P 		96.7
(-1)
P 		202
avr 141.8
(3) 		88.6
(-0) 		53.9
(-2) 		36.5
(-3) 		42.9
(-2.6) 		73.8
(-0.9) 		105
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172437_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15051
Sequence Type Exemplar sequence
Representative Public ID R09B5.3 NCBI
Target Description R09B5.3 /REP_DB=WormBase Gene ID /WP=CE12622 /TR=O44611 /GB=AAB94212.1 /SUBMIT=ST.LOUIS /CHR=5 /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_071017(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071017 NCBI Caenorhabditis elegans CaeNaCin (Caenorhabditis bacteriocin) family member (cnc-2) (cnc-2) mRNA, complete cds. 11/11 None
SNAP00000025908 ENSEMBL cdna:SNAP chromosome:CEL140:V:1449620:1450003:-1 11/11 None
GENEFINDER00000025918 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1449620:1450003:-1 11/11 None
R09B5.3.2 ENSEMBL cdna:known chromosome:CEL140:V:1449150:1450003:-1 gene:R09B5.3 11/11 None
R09B5.3.1 ENSEMBL cdna:known chromosome:CEL140:V:1449496:1450003:-1 gene:R09B5.3 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
chrV:1449619-1450003(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol cnc-2
Ensembl R09B5.3
Entrez Gene 178637 Entrez gene
SwissProt O44611 EMBL-EBI
WormBase CE12622 Wormbase
Functional Annotations
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503418.1 2 5-27,47-69
R09B5.3.2 2 5-27,47-69
R09B5.3.1 2 5-27,47-69
SNAP00000025908 2 5-27,47-69
GENEFINDER00000025918 2 5-27,47-69
Sequence
Target Sequence 
>C. ELEGANS:172437_X_AT
attcgttccatcctaattcttttggtcgctctcatcgccttctctaccgctcaatatggt
tatggaggatacccaggaatgatgggaggttatggaggatatccaggaatgatgggcggc
tacggaatgcgtccatatggaatgggttacggtatgggcatgggaggcatgggaatgtat
cgccct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCGTTCCATCCTAATTCTTTTGG 610 7 16 Antisense
CATCCTAATTCTTTTGGTCGCTCTC 245 211 24 Antisense
CCTTCTCTACCGCTCAATATGGTTA 501 269 53 Antisense
GGTTATGGAGGATACCCAGGAATGA 250 505 73 Antisense
GGAATGATGGGAGGTTATGGAGGAT 329 533 91 Antisense
GGAGGATATCCAGGAATGATGGGCG 200 517 109 Antisense
ATGATGGGCGGCTACGGAATGCGTC 140 47 124 Antisense
CGGCTACGGAATGCGTCCATATGGA 196 241 132 Antisense
GCGTCCATATGGAATGGGTTACGGT 556 291 144 Antisense
GGGTTACGGTATGGGCATGGGAGGC 669 495 159 Antisense
GGGAGGCATGGGAATGTATCGCCCT 542 493 177 Antisense
Sequence Source Affymetrix Proprietary Database