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[178672_s_at]

Description F56D5.4 /REP_DB=WormBase Gene ID /WP=CE05970 /TR=Q20884 /GB=CAA93503.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 52      6grp_high1_10_10 > 35      4grp_high_8_8 > 11      6grp_highest_nonorm > 50      6grp_total > 36      4grp_total > 13      6grp_highest_sub > 01_02      6grp_high1_sub > 02      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 993
1 2 3 4 range
A 460.3
(0)
P 		142.4
(-2.4)
P 		68.3
(-3)
P 		849.8
(3)
P 		782
B 540.8
(3)
P 		195.3
(-1.5)
P 		82.2
(-3)
A 		498.8
(2.5)
P 		459
C 589.9
(0.1)
P 		157.7
(-2.6)
P 		101.3
(-3)
P 		1061.1
(3)
P 		960
avr 530.3
(0.7) 		165.1
(-2.3) 		83.9
(-3) 		803.2
(3) 		719

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 571
1 2 3 4 5 6 range
A 516.4
(1.5)
P 		597.1
(3)
P 		273.2
(-3)
P 		492
(1.1)
P 		316.9
(-2.2)
P 		489.3
(1)
P 		324
B 619.6
(2.5)
P 		648.5
(3)
P 		272.4
(-3)
P 		456.7
(-0.1)
P 		444.1
(-0.3)
P 		494.7
(0.5)
P 		376
C 651.2
(1.2)
P 		825.7
(3)
P 		422.4
(-1.2)
P 		255
(-3)
P 		314.2
(-2.4)
P 		441
(-1)
P 		571
avr 595.7
(1.5) 		690.4
(3) 		322.7
(-3) 		401.2
(-1.7) 		358.4
(-2.4) 		475
(-0.5) 		368
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 178
1 2 3 4 range
A 167.6
(3)
P 		30.9
(-2.5)
P 		17.8
(-3)
P 		124.4
(1.3)
P 		150
B 172.5
(3)
P 		48.2
(-1.9)
P 		19
(-3)
A 		106.3
(0.4)
P 		154
C 195.3
(3)
P 		45.3
(-2.6)
P 		35.3
(-3)
P 		178.9
(2.4)
P 		160
avr 178.5
(3) 		41.5
(-2.3) 		24
(-3) 		136.5
(1.4) 		155

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 201
1 2 3 4 5 6 range
A 95.2
(-1.6)
P 		212.3
(3)
P 		59.5
(-3)
P 		124.8
(-0.4)
P 		95.6
(-1.6)
P 		119.1
(-0.7)
P 		153
B 215.6
(3)
P 		215.9
(3)
P 		66.1
(-3)
P 		121
(-0.8)
P 		180.4
(1.6)
P 		184.5
(1.7)
P 		150
C 241.4
(2.7)
P 		251.9
(3)
P 		107.5
(-1.3)
P 		51.3
(-3)
P 		101.7
(-1.5)
P 		147.6
(-0.1)
P 		201
avr 184.1
(1.3) 		226.7
(3) 		77.7
(-3) 		99
(-2.1) 		125.9
(-1.1) 		150.4
(-0.1) 		149
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 178672_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10255
Sequence Type Exemplar sequence
Representative Public ID F56D5.4 NCBI
Target Description F56D5.4 /REP_DB=WormBase Gene ID /WP=CE05970 /TR=Q20884 /GB=CAA93503.1 /SUBMIT=HINXTON /CHR=4 /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_058703(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058703 NCBI Caenorhabditis elegans C45E1.4 (C45E1.4) mRNA, complete cds. 9/11 None
SNAP00000006179 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9402778:9403832:-1 9/11 None
GENEFINDER00000006196 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9402778:9404015:-1 9/11 None
C45E1.4 ENSEMBL cdna:known chromosome:CEL140:I:3113019:3117626:-1 gene:C45E1.4 9/11 None
F56D5.4 ENSEMBL cdna:pseudogene chromosome:CEL140:IV:9402553:9404015:-1 gene:F56D5.4 9/11 A 
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
chrIV:9402730-9404021(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C45E1.4
F56D5.4
Entrez Gene 171885 Entrez gene
SwissProt O44962 EMBL-EBI
WormBase CE36633 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC24285 Hypothetical protein C45E1.4 [Caenorhabditis elegans] ref|NP_491104.3| C45E1.4 [Caenorhabditis elegans] 1.0E-105
blast T22778 hypothetical protein F56D5.4 - Caenorhabditis elegans 8.0E-89
blast T32892 hypothetical protein C45E1.4 - Caenorhabditis elegans 9.0E-63
blast T22778 hypothetical protein F56D5.4 - Caenorhabditis elegans 5.0E-57
blast CAE60576 Hypothetical protein CBG04207 [Caenorhabditis briggsae] 2.0E-42
blast AAK39247 Hypothetical protein K02B2.6 [Caenorhabditis elegans] ref|NP_500896.1| K02B2.6 [Caenorhabditis elegans] 5.0E-19
blast AAB66196 Hypothetical protein K09F6.6 [Caenorhabditis elegans] ref|NP_494225.2| K09F6.6 [Caenorhabditis elegans] 7.0E-14
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491104.3 2 4-23,192-214
C45E1.4 2 4-23,192-214
GENEFINDER00000006196 1 15-37
Sequence
Target Sequence 
>C. ELEGANS:178672_S_AT
gaatcgaaatttggtcattgttgttgtacattcactggatcacagtcttaaatgggaggg
tgttaaaaagatcatcggagaacatgaaaatttcgacgtgtccaatattcgtttcacggg
cctaactgacagtaagt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATCGAAATTTGGTCATTGTTGTT 143 329 645 Antisense
GGTCATTGTTGTTGTACATTCACTG 399 503 657 Antisense
TGTTGTTGTACATTCACTGGATCAC 159 563 663 Antisense
GTACATTCACTGGATCACAGTCTTA 257 461 670 Antisense
GGATCACAGTCTTAAATGGGAGGGT 635 509 681 Antisense
GGGAGGGTGTTAAAAAGATCATCGG 475 495 698 Antisense
GAACATGAAAATTTCGACGTGTCCA 552 349 724 Antisense
TCGACGTGTCCAATATTCGTTTCAC 688 601 737 Antisense
GTCCAATATTCGTTTCACGGGCCTA 74 477 744 Antisense
TTCGTTTCACGGGCCTAACTGACAG 698 681 752 Antisense
TTCACGGGCCTAACTGACAGTAAGT 659 685 757 Antisense
Sequence Source Affymetrix Proprietary Database