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[172439_x_at]

Description R09B5.2 /REP_DB=WormBase Gene ID /WP=CE12620 /TR=O44615 /GB=AAB94211.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 83      4grp_total > 0      6grp_cgc > 87      6grp_cgc_sub > 05      6grp_total_sub > Hat      6grp_rule_based > S5      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 2.4
(-3)
A 		7.5
(-2)
A 		3.1
(-2.9)
A 		33.6
(3)
A 		31
B 20.7
(0.3)
A 		4.3
(-3)
A 		19.1
(-0)
A 		34.2
(3)
A 		30
C 1.7
(-3)
A 		7
(-2.2)
A 		34.4
(2.1)
A 		40.5
(3)
A 		39
avr 8.3
(-2.6) 		6.3
(-3) 		18.9
(-0.5) 		36.1
(3) 		30

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 80
1 2 3 4 5 6 range
A 76.9
(-2.8)
A 		92.7
(-1.1)
A 		75.2
(-3)
A 		130.3
(3)
A 		129.9
(3)
P 		98.2
(-0.5)
A 		55
B 82.6
(-1.7)
A 		66.2
(-3)
A 		117.6
(1)
A 		103.7
(-0)
A 		142.4
(3)
P 		75.4
(-2.3)
A 		76
C 89.1
(-0.4)
A 		101.5
(0.8)
A 		74.4
(-1.8)
A 		118
(2.4)
A 		124
(3)
P 		62.3
(-3)
A 		62
avr 82.9
(-2.5) 		86.8
(-2.1) 		89.1
(-1.8) 		117.3
(1.3) 		132.1
(3) 		78.6
(-3) 		54
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 0.9
(-2.9)
A 		1.6
(-1.8)
A 		0.8
(-3)
A 		4.9
(3)
A 		4
B 6.6
(2.3)
A 		1.1
(-3)
A 		4.4
(0.2)
A 		7.3
(3)
A 		6
C 0.6
(-3)
A 		2
(-2.3)
A 		12
(3)
A 		6.8
(0.3)
A 		11
avr 2.7
(-1.6) 		1.6
(-3) 		5.7
(2.2) 		6.3
(3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 44
1 2 3 4 5 6 range
A 14.2
(-3)
A 		33
(1.5)
A 		16.4
(-2.5)
A 		33.1
(1.5)
A 		39.2
(3)
P 		23.9
(-0.7)
A 		25
B 28.7
(-1.9)
A 		22
(-3)
A 		28.6
(-1.9)
A 		27.5
(-2.1)
A 		57.8
(3)
P 		28.1
(-2)
A 		36
C 33
(1)
A 		31
(0.4)
A 		18.9
(-3)
A 		23.7
(-1.6)
A 		40.1
(3)
P 		20.8
(-2.5)
A 		21
avr 25.3
(-2) 		28.7
(-1.2) 		21.3
(-3) 		28.1
(-1.3) 		45.7
(3) 		24.3
(-2.3) 		24
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172439_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15773
Sequence Type Exemplar sequence
Representative Public ID R09B5.2 NCBI
Target Description R09B5.2 /REP_DB=WormBase Gene ID /WP=CE12620 /TR=O44615 /GB=AAB94211.1 /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_071013(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071013 NCBI Caenorhabditis elegans CaeNaCin (Caenorhabditis bacteriocin) family member (cnc-1) (cnc-1) mRNA, complete cds. 11/11 None
SNAP00000025904 ENSEMBL cdna:SNAP chromosome:CEL140:V:1443873:1444109:-1 11/11 None
GENEFINDER00000025916 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1443873:1444109:-1 11/11 None
R09B5.2 ENSEMBL cdna:known chromosome:CEL140:V:1443873:1444109:-1 gene:R09B5.2 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:1443872-1444109(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol cnc-1
Ensembl R09B5.2
Entrez Gene 187726 Entrez gene
SwissProt O44615 EMBL-EBI
WormBase CE12620 Wormbase
Functional Annotations
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503414.1 2 5-22,37-59
R09B5.2 2 5-22,37-59
SNAP00000025904 2 5-22,37-59
GENEFINDER00000025916 2 5-22,37-59
Sequence
Target Sequence 
>C. ELEGANS:172439_X_AT
atgctacgtttcattatcatccttcttgttgccattgtcgccatttcctctgcgcaatgg
ggatataactcatatggatatggtaattacggtggttatggaggatatccaatgtatgga
ggatacggtatgaatggtggatatggtggaggtggtctt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCTACGTTTCATTATCATCCTTC 474 43 13 Antisense
CTACGTTTCATTATCATCCTTCTTG 129 227 16 Antisense
TTCATTATCATCCTTCTTGTTGCCA 500 689 22 Antisense
CATTTCCTCTGCGCAATGGGGATAT 504 215 54 Antisense
CTCTGCGCAATGGGGATATAACTCA 387 231 60 Antisense
GGGGATATAACTCATATGGATATGG 579 497 71 Antisense
ATATGGTAATTACGGTGGTTATGGA 481 3 90 Antisense
ATTACGGTGGTTATGGAGGATATCC 216 3 98 Antisense
GGAGGATATCCAATGTATGGAGGAT 203 517 112 Antisense
GAGGATACGGTATGAATGGTGGATA 93 403 131 Antisense
TGGTGGATATGGTGGAGGTGGTCTT 122 553 147 Antisense
Sequence Source Affymetrix Proprietary Database