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[183689_at]

Description C54F6.3 /REP_DB=WormBase Gene ID /WP=CE08975 /TR=O16449 /GB=AAG24008.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 72      4grp_total > 41      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 85
1 2 3 4 range
A 12.2
(-3)
A 		86
(3)
P 		59.7
(0.9)
P 		40.3
(-0.7)
A 		74
B 31.7
(-2.4)
A 		71.5
(0.9)
P 		96.8
(3)
P 		24.2
(-3)
A 		73
C 26.7
(-3)
A 		85.2
(3)
P 		61.4
(0.6)
P 		59.2
(0.3)
A 		59
avr 23.5
(-3) 		80.9
(3) 		72.6
(2.1) 		41.2
(-1.1) 		57

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 93
1 2 3 4 5 6 range
A 43.4
(-2.3)
A 		97.2
(3)
P 		88.2
(2.1)
P 		70.9
(0.4)
P 		89.3
(2.2)
P 		36.1
(-3)
P 		61
B 21.4
(-3)
A 		71.3
(1.2)
P 		92.2
(3)
P 		88.5
(2.7)
P 		79.5
(1.9)
P 		53.7
(-0.3)
P 		71
C 32.1
(-3)
A 		96.2
(1.7)
P 		114
(3)
P 		60.5
(-0.9)
P 		106.2
(2.4)
P 		44.3
(-2.1)
A 		82
avr 32.3
(-3) 		88.2
(2.1) 		98.1
(3) 		73.3
(0.7) 		91.7
(2.4) 		44.7
(-1.9) 		66
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 4.4
(-3)
A 		18.7
(3)
P 		15.6
(1.7)
P 		5.9
(-2.4)
A 		14
B 10.1
(-1.3)
A 		17.7
(1.4)
P 		22.4
(3)
P 		5.2
(-3)
A 		17
C 8.8
(-3)
A 		24.5
(3)
P 		21.4
(1.8)
P 		10
(-2.5)
A 		16
avr 7.8
(-2.6) 		20.3
(3) 		19.8
(2.8) 		7
(-3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 8
(-3)
A 		34.6
(3)
P 		19.2
(-0.5)
P 		18
(-0.7)
P 		26.9
(1.3)
P 		8.8
(-2.8)
P 		27
B 7.5
(-3)
A 		23.7
(0.9)
P 		22.4
(0.6)
P 		23.4
(0.8)
P 		32.3
(3)
P 		20
(0)
P 		25
C 11.9
(-3)
A 		29.4
(1.7)
P 		29
(1.6)
P 		12.2
(-2.9)
P 		34.4
(3)
P 		14.8
(-2.2)
A 		23
avr 9.1
(-3) 		29.2
(2.5) 		23.5
(0.9) 		17.9
(-0.6) 		31.2
(3) 		14.5
(-1.5) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183689_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11845
Sequence Type Exemplar sequence
Representative Public ID C54F6.3 NCBI
Target Description C54F6.3 /REP_DB=WormBase Gene ID /WP=CE08975 /TR=O16449 /GB=AAG24008.1 /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_072539(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072539 NCBI Caenorhabditis elegans C54F6.3 (C54F6.3) mRNA, complete cds. 11/11 None
SNAP00000031624 ENSEMBL cdna:SNAP chromosome:CEL140:V:7536427:7537566:1 11/11 None
GENEFINDER00000031630 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:7532732:7537566:1 11/11 None
C54F6.3 ENSEMBL cdna:known chromosome:CEL140:V:7535885:7537566:1 gene:C54F6.3 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:7535885-7537567(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C54F6.3
Entrez Gene 183803 Entrez gene
SwissProt O16449 EMBL-EBI
WormBase CE08975 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_504940 C54F6.3 [Caenorhabditis elegans] gb|AAG24008.1| Hypothetical protein C54F6.3 [Caenorhabditis elegans] 1.0E-177
blast NP_504940 C54F6.3 [Caenorhabditis elegans] gb|AAG24008.1| Hypothetical protein C54F6.3 [Caenorhabditis elegans] 1.0E-174
blast NP_504940 C54F6.3 [Caenorhabditis elegans] gb|AAG24008.1| Hypothetical protein C54F6.3 [Caenorhabditis elegans] 1.0E-138
blast CAE57791 Hypothetical protein CBG00814 [Caenorhabditis briggsae] 1.0E-131
blast AAB96709 Hypothetical protein F49D11.3 [Caenorhabditis elegans] ref|NP_492846.1| F49D11.3 [Caenorhabditis elegans] 1.0E-103
blast AAB96709 Hypothetical protein F49D11.3 [Caenorhabditis elegans] ref|NP_492846.1| F49D11.3 [Caenorhabditis elegans] 1.0E-102
Protein Domains
Database ID Description E-Value
Pfam IPR007669 EMBL-EBI Protein of unknown function DUF595 1.0E-126
Pfam IPR007669 EMBL-EBI Protein of unknown function DUF595 1.0E-126
Pfam IPR004316 EMBL-EBI MtN3 and saliva related transmembrane protein 1.8
Pfam IPR004316 EMBL-EBI MtN3 and saliva related transmembrane protein 2.5E-25
Pfam IPR004316 EMBL-EBI MtN3 and saliva related transmembrane protein 6.6E-36
Pfam IPR007669 EMBL-EBI Protein of unknown function DUF595 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504940.1 1 7-26
C54F6.3 1 7-26
GENEFINDER00000031630 8 7-29,87-107,114-136,141-163,170-192,197-219,226-248,263-285
Sequence
Target Sequence 
>C. ELEGANS:183689_AT
caacccgaaattccgaattccatctttattgttgctcaatgacacggataccgttcgttt
tgcttttatcagagacccaattgaacgattcgtgtcattatatctggataaatgcttaaa
agagaatgcttgctggaattgtggtgaagatatgcgatgcgtggtgaaggaaatttacaa
tggactgaaaaaggttcagaaccataaagaatggcaaccaattccaacttatatggatac
tcacgcagcgcctttatcatggaattgcaattttgacaaggatctagcaaagtggcattt
gttgatgatgggagcagatgtggaagaaaggaaatcgtcaatttttcatttggcaaatat
ttttaaaagacaaggagtatcacacgcagttgttgaaaaagtgaaggaggaaactatggc
cggggaaactgctcactccacgcacaaatcatccaaaagagtcgaggcagagcgacaagt
tcgagaggatcctgttgtcagagactatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAACCCGAAATTCCGAATTCCATCT 89 145 348 Antisense
GAATTCCATCTTTATTGTTGCTCAA 52 325 362 Antisense
GTTGCTCAATGACACGGATACCGTT 633 437 378 Antisense
TACCGTTCGTTTTGCTTTTATCAGA 350 649 396 Antisense
GAGACCCAATTGAACGATTCGTGTC 146 395 419 Antisense
GAATGGCAACCAATTCCAACTTATA 438 333 556 Antisense
ATACTCACGCAGCGCCTTTATCATG 508 23 584 Antisense
AGGAGTATCACACGCAGTTGTTGAA 120 57 720 Antisense
ACTATGGCCGGGGAAACTGCTCACT 613 99 760 Antisense
ACTCCACGCACAAATCATCCAAAAG 468 99 782 Antisense
GAGGATCCTGTTGTCAGAGACTATC 474 403 832 Antisense
Sequence Source Affymetrix Proprietary Database