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[181670_at]

Description C39B5.4 /REP_DB=WormBase Gene ID /WP=CE23580 /TR=Q9N5X0 /GB=AAF39769.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 22      4grp_high_8_8 > 07      6grp_total > 31      4grp_total > 01      6grp_high1_sub > De      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 322
1 2 3 4 range
A 109.6
(-3)
M 		139.7
(-2.4)
A 		175.2
(-1.6)
P 		394.4
(3)
P 		285
B 168.6
(-2.2)
A 		125.6
(-3)
A 		173.6
(-2.1)
P 		431.2
(3)
P 		306
C 147.7
(-2.4)
P 		119.8
(-3)
P 		174.8
(-1.8)
P 		389.5
(3)
P 		270
avr 142
(-2.7) 		128.4
(-3) 		174.5
(-2) 		405
(3) 		277

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 242
1 2 3 4 5 6 range
A 209.6
(0.2)
P 		243.5
(1.1)
P 		321.3
(3)
P 		219.8
(0.5)
P 		207.4
(0.2)
M 		78.9
(-3)
A 		242
B 299.8
(3)
P 		274.9
(2.2)
P 		252.4
(1.5)
P 		277.2
(2.3)
P 		162.8
(-1.4)
P 		112.2
(-3)
P 		188
C 200.4
(-0.2)
P 		305.6
(3)
P 		182.9
(-0.7)
P 		268
(1.9)
P 		144.2
(-1.9)
A 		107.6
(-3)
P 		198
avr 236.6
(1.7) 		274.7
(3) 		252.2
(2.2) 		255
(2.3) 		171.5
(-0.5) 		99.6
(-3) 		175
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 62
1 2 3 4 range
A 39.9
(-0.9)
M 		30.3
(-3)
A 		45.8
(0.4)
P 		57.7
(3)
P 		27
B 53.8
(-0.8)
A 		31
(-3)
A 		40.2
(-2.1)
P 		91.9
(3)
P 		61
C 48.9
(-0.2)
P 		34.4
(-3)
P 		60.9
(2.1)
P 		65.7
(3)
P 		31
avr 47.5
(-0.7) 		31.9
(-3) 		49
(-0.4) 		71.8
(3) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 85
1 2 3 4 5 6 range
A 38.6
(-1.3)
P 		86.6
(3)
P 		70
(1.5)
P 		55.7
(0.2)
P 		62.6
(0.9)
M 		19.2
(-3)
A 		67
B 104.3
(3)
P 		91.5
(1.8)
P 		61.3
(-1.1)
P 		73.4
(0)
P 		66.1
(-0.7)
P 		41.8
(-3)
P 		63
C 74.3
(1)
P 		93.3
(3)
P 		46.5
(-1.9)
P 		53.9
(-1.1)
P 		46.7
(-1.9)
A 		36
(-3)
P 		57
avr 72.4
(1.1) 		90.5
(3) 		59.3
(-0.2) 		61
(-0) 		58.5
(-0.3) 		32.3
(-3) 		58
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 181670_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8218
Sequence Type Exemplar sequence
Representative Public ID C39B5.4 NCBI
Target Description C39B5.4 /REP_DB=WormBase Gene ID /WP=CE23580 /TR=Q9N5X0 /GB=AAF39769.1 /SUBMIT=ST.LOUIS /CHR=3 /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_065114(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065114 NCBI Caenorhabditis elegans C39B5.4 (C39B5.4) mRNA, complete cds. 11/11 None
SNAP00000012610 ENSEMBL cdna:SNAP chromosome:CEL140:III:2224791:2233569:1 11/11 None
GENEFINDER00000012621 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:2224791:2227609:1 11/11 None
C39B5.4 ENSEMBL cdna:known chromosome:CEL140:III:2224699:2227113:1 gene:C39B5.4 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
chrIII:2224790-2227113(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C39B5.4
Entrez Gene 183323 Entrez gene
SwissProt Q9N5X0 EMBL-EBI
WormBase CE23580 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF39769 Hypothetical protein C39B5.4 [Caenorhabditis elegans] ref|NP_497515.1| C39B5.4 [Caenorhabditis elegans] 1.0E-166
blast AAF39769 Hypothetical protein C39B5.4 [Caenorhabditis elegans] ref|NP_497515.1| C39B5.4 [Caenorhabditis elegans] 1.0E-165
blast AAF39769 Hypothetical protein C39B5.4 [Caenorhabditis elegans] ref|NP_497515.1| C39B5.4 [Caenorhabditis elegans] 1.0E-153
blast AAF39768 Hypothetical protein C39B5.3 [Caenorhabditis elegans] ref|NP_497516.1| C39B5.3 [Caenorhabditis elegans] 1.0E-115
blast CAB03489 Hypothetical protein ZC47.4 [Caenorhabditis elegans] ref|NP_497367.1| ZC47.4 [Caenorhabditis elegans] 2.0E-57
blast CAB03494 Hypothetical protein ZC47.6 [Caenorhabditis elegans] ref|NP_497363.1| ZC47.6 [Caenorhabditis elegans] 3.0E-57
blast CAB03489 Hypothetical protein ZC47.4 [Caenorhabditis elegans] ref|NP_497367.1| ZC47.4 [Caenorhabditis elegans] 1.0E-56
Protein Domains
Database ID Description E-Value
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 5.1E-48
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 3.1E-14
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 5.1E-48
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 1.8E-39
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 8.7E-4
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000012610 1 506-528
Sequence
Target Sequence 
>C. ELEGANS:181670_AT
ataaggcccacaacagtcacatttatggcacttctttatttcaaagtttcaaaaaatgtg
ctaacgtgaaggtactcacacttatcgggctgaaggatattctaaccatgctcccatatt
ttgatgctgaaactctggaaaactttcaactatggggagccgatgcaattgatgaacaga
taactattctggatcagtggaaaaatgcgaaaaaatttcaactttggaattctgattttg
acgctaaatttataagccatctgtttcacttccaatgctttactattaacacaatgaccg
aattctcaatagaggctatgatcgagattagagatgatctgttgagaagaagcacatttg
aaagctgctacatatatttcaacagttcaaatccaaaagaacttgcaaaagtgttcaact
acactggaggctatccttgtaaaatcgagtacaacaacagatttgcggttgaacttgaag
agtccacatttgagccaaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATAAGGCCCACAACAGTCACATTTA 278 25 395 Antisense
GTCACATTTATGGCACTTCTTTATT 450 465 410 Antisense
GTACTCACACTTATCGGGCTGAAGG 644 459 466 Antisense
TATTCTAACCATGCTCCCATATTTT 19 665 492 Antisense
GAAAACTTTCAACTATGGGGAGCCG 489 353 532 Antisense
GGGGAGCCGATGCAATTGATGAACA 669 497 548 Antisense
TATAAGCCATCTGTTTCACTTCCAA 236 661 645 Antisense
GTTTCACTTCCAATGCTTTACTATT 101 451 657 Antisense
TGTTCAACTACACTGGAGGCTATCC 372 561 806 Antisense
GGAGGCTATCCTTGTAAAATCGAGT 599 515 820 Antisense
TGAAGAGTCCACATTTGAGCCAAAT 234 575 870 Antisense
Sequence Source Affymetrix Proprietary Database