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[186863_at]

Description Y55F3AM.6 /REP_DB=WormBase Gene ID /WP=CE25488 /TR=Q9N373 /GB=AAF60798.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 77      4grp_total > 32      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 25
1 2 3 4 range
A 3.7
(-3)
A 		4.7
(-2.8)
A 		13.2
(-0.7)
A 		28.5
(3)
A 		25
B 26
(3)
A 		7.6
(-3)
A 		21.6
(1.6)
A 		9.7
(-2.3)
A 		18
C 3.3
(-3)
A 		10.9
(-0.8)
A 		23.8
(3)
A 		10.8
(-0.8)
A 		21
avr 11
(-1.3) 		7.7
(-3) 		19.5
(3) 		16.3
(1.4) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 60
1 2 3 4 5 6 range
A 16.2
(-1.8)
A 		11.2
(-2.3)
A 		4.1
(-3)
A 		6.8
(-2.7)
A 		6.9
(-2.7)
A 		63.7
(3)
A 		60
B 20
(-1)
A 		6.5
(-3)
A 		26.9
(-0)
A 		31.7
(0.7)
A 		43.7
(2.4)
A 		47.9
(3)
A 		41
C 3.3
(-3)
A 		23
(-0.8)
A 		43.6
(1.5)
A 		11.1
(-2.1)
A 		13.5
(-1.9)
A 		57.1
(3)
A 		54
avr 13.2
(-3) 		13.6
(-2.9) 		24.9
(-1.4) 		16.5
(-2.5) 		21.4
(-1.9) 		56.2
(3) 		43
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 7
1 2 3 4 range
A 1.3
(-2.4)
A 		1
(-3)
A 		3.5
(1.7)
A 		4.2
(3)
A 		3
B 8.3
(3)
A 		1.9
(-3)
A 		5
(-0.1)
A 		2.1
(-2.8)
A 		6
C 1.1
(-3)
A 		3.1
(-1.3)
A 		8.3
(3)
A 		1.8
(-2.4)
A 		7
avr 3.6
(-0.3) 		2
(-3) 		5.6
(3) 		2.7
(-1.8) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 3
(-2.1)
A 		4
(-1.7)
A 		0.9
(-3)
A 		1.7
(-2.7)
A 		2.1
(-2.5)
A 		15.5
(3)
A 		15
B 6.9
(-1.2)
A 		2.2
(-3)
A 		6.5
(-1.4)
A 		8.4
(-0.6)
A 		17.8
(3)
A 		17.9
(3)
A 		16
C 1.2
(-3)
A 		7
(-1.1)
A 		11.1
(0.3)
A 		2.2
(-2.7)
A 		4.4
(-1.9)
A 		19.1
(3)
A 		18
avr 3.7
(-3) 		4.4
(-2.7) 		6.2
(-1.9) 		4.1
(-2.8) 		8.1
(-1.1) 		17.5
(3) 		14
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186863_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10657
Sequence Type Exemplar sequence
Representative Public ID Y55F3AM.6 NCBI
Target Description Y55F3AM.6 /REP_DB=WormBase Gene ID /WP=CE25488 /TR=Q9N373 /GB=AAF60798.1 /SUBMIT=ST.LOUIS /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_001028339(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028339 NCBI Caenorhabditis elegans Y55F3AM.6a (Y55F3AM.6) mRNA, complete cds. 11/11 None
SNAP00000030047 ENSEMBL cdna:SNAP chromosome:CEL140:IV:988402:1012431:1 10/11 None
GENEFINDER00000030075 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:991063:998029:1 10/11 None
Y55F3AM.6a ENSEMBL cdna:known chromosome:CEL140:IV:992289:998416:1 gene:Y55F3AM.6 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001028340 2/11 Cross Hyb Matching Probes None
Y55F3AM.6b 2/11 Cross Hyb Matching Probes A 
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
176918 2 1 NM_001028339 186863_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:992297-997637(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y55F3AM.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF60798 Hypothetical protein Y55F3AM.6a [Caenorhabditis elegans] ref|NP_001023510.1| Y55F3AM.6a [Caenorhabditis elegans] 0.0
blast AAP13746 Hypothetical protein Y55F3AM.6b [Caenorhabditis elegans] ref|NP_001023511.1| Y55F3AM.6b [Caenorhabditis elegans] 0.0
blast AAP13746 Hypothetical protein Y55F3AM.6b [Caenorhabditis elegans] ref|NP_001023511.1| Y55F3AM.6b [Caenorhabditis elegans] 1.0E-164
blast AAF60798 Hypothetical protein Y55F3AM.6a [Caenorhabditis elegans] ref|NP_001023510.1| Y55F3AM.6a [Caenorhabditis elegans] 1.0E-158
blast AAP13746 Hypothetical protein Y55F3AM.6b [Caenorhabditis elegans] ref|NP_001023511.1| Y55F3AM.6b [Caenorhabditis elegans] 1.0E-132
blast CAE68284 Hypothetical protein CBG13968 [Caenorhabditis briggsae] 1.0E-129
Protein Domains
Database ID Description E-Value
Pfam IPR000571 EMBL-EBI Zn-finger, C-x8-C-x5-C-x3-H type 1.7E-4
Pfam IPR001841 EMBL-EBI Zn-finger, RING 2.8E-6
Pfam IPR007135 EMBL-EBI Autophagocytosis associated protein, C-terminal 1.0E-74
Pfam IPR001841 EMBL-EBI Zn-finger, RING 2.8E-6
Pfam IPR001841 EMBL-EBI Zn-finger, RING 2.8E-6
Sequence
Target Sequence 
>C. ELEGANS:186863_AT
aaaacgtgcggaatttgtatggagaacattttcgagaaaaatttgcgttttggaatatta
aacggatgtcaacactgcttttgcctggattgtatccgtcaatggagatcaaaagatcag
gaaaatgtggaattggcgacaaaaacggttagaagttgtccagaatgtaggcaacactcg
gattatgttataccatcactgttttgggtggaaagtggacaggaaaaggatttattgatt
gaaatgtataaggaaaatacgaaaagaaagatttgcaagtactattcgaacgagcgatcc
cgtggtgcatgtccattcggaaacaaatgcttctataaacatcaacttccagatggttct
attgatcctggagaagccccatcgagccgccgtcgcccacgccttgtcgattttctattc
gatgataattcggattccgacgaggaaacattccgccgattccaagaagaacacgaggaa
gaacaagaggaattactgagatttgtggccgaaactctgccggaagctgacgaagaatcg
gaactttttcgacaaattaccgaagttcttcggcattatcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAACGTGCGGAATTTGTATGGAGA 502 129 643 Antisense
TGGAATATTAAACGGATGTCAACAC 668 545 693 Antisense
TATTGATCCTGGAGAAGCCCCATCG 137 659 1002 Antisense
CACGCCTTGTCGATTTTCTATTCGA 27 201 1040 Antisense
TTCGATGATAATTCGGATTCCGACG 276 697 1060 Antisense
TTCCGACGAGGAAACATTCCGCCGA 447 699 1077 Antisense
AAACATTCCGCCGATTCCAAGAAGA 166 129 1088 Antisense
GAGGAATTACTGAGATTTGTGGCCG 486 405 1129 Antisense
ATTTGTGGCCGAAACTCTGCCGGAA 573 17 1143 Antisense
GAAACTCTGCCGGAAGCTGACGAAG 518 357 1153 Antisense
TACCGAAGTTCTTCGGCATTATCAA 569 649 1200 Antisense
Sequence Source Affymetrix Proprietary Database