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[172405_x_at]

Description R09B5.8 /REP_DB=WormBase Gene ID /WP=CE12632 /TR=O44612 /GB=AAB94209.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 06      6grp_high1_10_10 > 50      6grp_highest_nonorm > 23      6grp_total > 41      4grp_total > 51      6grp_highest_sub > 04      6grp_cgc > 60      6grp_high1_sub > 03_04      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1442
1 2 3 4 range
A 758.8
(-0.1)
P 		1503
(3)
P 		1070
(1.2)
P 		61.2
(-3)
A 		1442
B 714.8
(0.2)
P 		1287.8
(3)
P 		1012.4
(1.6)
P 		65.9
(-3)
A 		1222
C 707.2
(-0.1)
P 		1349
(3)
P 		1121.3
(1.9)
P 		124.3
(-3)
A 		1225
avr 726.9
(-0) 		1379.9
(3) 		1067.9
(1.6) 		83.8
(-3) 		1296

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2891
1 2 3 4 5 6 range
A 2171.1
(0.7)
P 		2039.4
(0.4)
P 		2910.3
(2.2)
P 		3278.5
(3)
P 		1190.6
(-1.3)
P 		387.2
(-3)
P 		2891
B 1973.4
(1.2)
P 		2111.9
(1.6)
P 		2635.8
(3)
P 		2377.6
(2.3)
P 		1720.8
(0.5)
P 		466.2
(-3)
P 		2170
C 2100.1
(1.8)
P 		2130.5
(1.9)
P 		2128.1
(1.8)
P 		2510.3
(3)
P 		1332.3
(-0.6)
P 		520.7
(-3)
P 		1990
avr 2081.5
(1.3) 		2093.9
(1.3) 		2558.1
(2.6) 		2722.1
(3) 		1414.6
(-0.5) 		458
(-3) 		2264
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 382
1 2 3 4 range
A 276.3
(2.1)
P 		326.3
(3)
P 		279.7
(2.1)
P 		9
(-3)
A 		317
B 227.9
(1.2)
P 		318.1
(3)
P 		234.6
(1.4)
P 		14
(-3)
A 		304
C 234.1
(0.5)
P 		387.8
(3)
P 		390.8
(3)
P 		21
(-3)
A 		370
avr 246.1
(1.2) 		344.1
(3) 		301.7
(2.2) 		14.7
(-3) 		329

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 737
1 2 3 4 5 6 range
A 400.2
(-0.5)
P 		725.3
(2.1)
P 		633.8
(1.4)
P 		831.5
(3)
P 		359.3
(-0.8)
P 		94.3
(-3)
P 		737
B 686.6
(2.8)
P 		703
(3)
P 		640.1
(2.3)
P 		629.7
(2.2)
P 		699.1
(3)
P 		173.9
(-3)
P 		529
C 778.4
(3)
P 		650.1
(1.7)
P 		541.6
(0.6)
P 		504.8
(0.3)
P 		431.1
(-0.4)
P 		174.3
(-3)
P 		604
avr 621.7
(2.2) 		692.8
(3) 		605.2
(2) 		655.3
(2.6) 		496.5
(0.8) 		147.5
(-3) 		545
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172405_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14937
Sequence Type Exemplar sequence
Representative Public ID R09B5.8 NCBI
Target Description R09B5.8 /REP_DB=WormBase Gene ID /WP=CE12632 /TR=O44612 /GB=AAB94209.1 /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_071016(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071016 NCBI Caenorhabditis elegans CaeNaCin (Caenorhabditis bacteriocin) family member (cnc-3) (cnc-3) mRNA, complete cds. 11/11 None
SNAP00000025907 ENSEMBL cdna:SNAP chromosome:CEL140:V:1447914:1448508:1 11/11 None
GENEFINDER00000025919 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1447094:1448453:1 9/11 None
R09B5.8 ENSEMBL cdna:known chromosome:CEL140:V:1447860:1448621:1 gene:R09B5.8 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:1447913-1448508(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol cnc-3
Ensembl R09B5.8
Entrez Gene 178636 Entrez gene
SwissProt O44612 EMBL-EBI
WormBase CE12632 Wormbase
Functional Annotations
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_503417.1 2 5-27,47-69
R09B5.8 2 5-27,47-69
SNAP00000025907 2 5-27,47-69
GENEFINDER00000025919 3 5-23,38-60,138-160
Sequence
Target Sequence 
>C. ELEGANS:172405_X_AT
atgctacgttctgttttggtaatccttgctcttttgcatgcttgcgtcgctcagtatgga
tacggcccaatgatgggaggatatggaccaggcatgatgggcggatacgggccaggcatg
atgggaggttatgggcccggaatgatgggaggttatgggcccggaatgatgggcggttat
ggtatgtccccaatgtacggtggata

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCTACGTTCTGTTTTGGTAATCC 62 31 13 Antisense
TTTTGGTAATCCTTGCTCTTTTGCA 423 671 26 Antisense
TAATCCTTGCTCTTTTGCATGCTTG 94 637 32 Antisense
TGCATGCTTGCGTCGCTCAGTATGG 256 579 47 Antisense
GTCGCTCAGTATGGATACGGCCCAA 543 473 58 Antisense
GGACCAGGCATGATGGGCGGATACG 164 519 97 Antisense
GGCGGATACGGGCCAGGCATGATGG 453 539 112 Antisense
GGGAGGTTATGGGCCCGGAATGATG 229 495 135 Antisense
GGAGGTTATGGGCCCGGAATGATGG 525 515 160 Antisense
GATGGGCGGTTATGGTATGTCCCCA 474 397 180 Antisense
GTATGTCCCCAATGTACGGTGGATA 84 453 194 Antisense
Sequence Source Affymetrix Proprietary Database