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[187454_at]

Description Y55F3AM.11 /REP_DB=WormBase Gene ID /WP=CE22544 /TR=Q9N365 /GB=AAF60792.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 74      6grp_high1_10_10 > 47      4grp_highest_8_8 > 11      4grp_high_8_8 > 55      6grp_highest_nonorm > 90      6grp_total > 47      4grp_total > 48      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 72
1 2 3 4 range
A 92.3
(-3)
P 		114.8
(1.3)
P 		123.6
(3)
P 		118.4
(2)
P 		31
B 90
(-3)
P 		124.2
(0.8)
P 		144.2
(3)
P 		99.8
(-1.9)
P 		54
C 91
(-1.7)
P 		137
(2.2)
P 		147.1
(3)
P 		75.6
(-3)
P 		72
avr 91.1
(-3) 		125.3
(1.3) 		138.3
(3) 		97.9
(-2.1) 		47

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 71
1 2 3 4 5 6 range
A 125.4
(1.1)
P 		111.9
(-0.4)
P 		101.6
(-1.6)
P 		141.7
(3)
P 		88.9
(-3)
P 		98.2
(-1.9)
P 		53
B 128.9
(1.9)
P 		140.4
(3)
P 		110.7
(0.2)
P 		76.3
(-3)
P 		97.9
(-1)
P 		132.8
(2.3)
P 		64
C 104.8
(0.4)
P 		70.9
(-3)
P 		102.5
(0.1)
P 		70.4
(-3)
P 		90.3
(-1.1)
P 		131.9
(3)
P 		62
avr 119.7
(2.7) 		107.7
(0.2) 		104.9
(-0.4) 		96.1
(-2.2) 		92.4
(-3) 		121
(3) 		29
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 33.6
(3)
P 		24.9
(-0.2)
P 		32.3
(2.5)
P 		17.3
(-3)
P 		16
B 28.7
(0.7)
P 		30.7
(1.7)
P 		33.4
(3)
P 		21.3
(-3)
P 		12
C 30.1
(-0.3)
P 		39.4
(1.2)
P 		51.3
(3)
P 		12.7
(-3)
P 		39
avr 30.8
(0.8) 		31.7
(1) 		39
(3) 		17.1
(-3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 35
1 2 3 4 5 6 range
A 23.1
(-2.7)
P 		39.8
(3)
P 		22.1
(-3)
P 		35.9
(1.7)
P 		26.8
(-1.4)
P 		23.9
(-2.4)
P 		18
B 44.9
(2.1)
P 		46.7
(2.4)
P 		26.9
(-1.6)
P 		20.2
(-3)
P 		39.8
(1)
P 		49.5
(3)
P 		29
C 38.9
(1.9)
P 		21.6
(-1.5)
P 		26.1
(-0.6)
P 		14.2
(-3)
P 		29.2
(-0)
P 		44.2
(3)
P 		30
avr 35.6
(1.6) 		36
(1.8) 		25
(-2.4) 		23.4
(-3) 		31.9
(0.2) 		39.2
(3) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187454_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10426
Sequence Type Exemplar sequence
Representative Public ID Y55F3AM.11 NCBI
Target Description Y55F3AM.11 /REP_DB=WormBase Gene ID /WP=CE22544 /TR=Q9N365 /GB=AAF60792.1 /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_067627(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067627 NCBI Caenorhabditis elegans Y55F3AM.11 (Y55F3AM.11) mRNA, complete cds. 11/11 None
GENEFINDER00000030064 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1038753:1041008:-1 10/11 None
Y55F3AM.11 ENSEMBL cdna:known chromosome:CEL140:IV:1038753:1041008:-1 gene:Y55F3AM.11 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000030053 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:1038758-1041014(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y55F3AM.11
Entrez Gene 190309 Entrez gene
SwissProt Q9N365 EMBL-EBI
WormBase CE22544 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF60792 Hypothetical protein Y55F3AM.11 [Caenorhabditis elegans] ref|NP_500028.1| Y55F3AM.11 [Caenorhabditis elegans] 0.0
blast AAF60792 Hypothetical protein Y55F3AM.11 [Caenorhabditis elegans] ref|NP_500028.1| Y55F3AM.11 [Caenorhabditis elegans] 1.0E-175
blast CAE74720 Hypothetical protein CBG22536 [Caenorhabditis briggsae] 1.0E-118
blast CAE74720 Hypothetical protein CBG22536 [Caenorhabditis briggsae] 1.0E-111
blast AAD12817 Hypothetical protein Y39F10A.3 [Caenorhabditis elegans] ref|NP_493807.1| Y39F10A.3 [Caenorhabditis elegans] 1.0E-100
blast AAD12817 Hypothetical protein Y39F10A.3 [Caenorhabditis elegans] ref|NP_493807.1| Y39F10A.3 [Caenorhabditis elegans] 2.0E-94
Protein Domains
Database ID Description E-Value
Pfam IPR007744 EMBL-EBI Protein of unknown function DUF672 1.0E-126
Pfam IPR007744 EMBL-EBI Protein of unknown function DUF672 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_500028.1 1 5-22
Y55F3AM.11 1 5-22
GENEFINDER00000030064 1 5-22
Sequence
Target Sequence 
>C. ELEGANS:187454_AT
gggaccagaggtcttttgtcctgaaaaagtacgcatcggaacagttggagacggcggaaa
atgggtttgcaatccgtggaagtgcccgaacaattctgtaatgttctcgctaggtctcaa
caattggataactttcgaggaggaatggcagaagcttacagataatcgaaatattttata
tggttttgatgcggctgaccaaaacgacagaacccgtcaaacctactcaaaaatccgtgg
aacctcgaaaaaagctctaatctccgtggcaaccgatccagcaactagcaaatacacaat
tgatgatcttgccaagcactttaatgtttccaatattgaaattctaaaaatcgatattga
aggcgccgagttgacgtgtttaattccattccttgagaaatacgaagtatgtcaaatcta
cttggagctccacggcggagcacaggaacacgcgaaattgctcagggaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGACCAGAGGTCTTTTGTCCTGAA 399 495 372 Antisense
TGCAATCCGTGGAAGTGCCCGAACA 339 577 439 Antisense
TCTGTAATGTTCTCGCTAGGTCTCA 89 609 466 Antisense
AAAAAGCTCTAATCTCCGTGGCAAC 701 127 620 Antisense
TGGCAACCGATCCAGCAACTAGCAA 1 547 638 Antisense
GCCAAGCACTTTAATGTTTCCAATA 115 279 682 Antisense
GAAGGCGCCGAGTTGACGTGTTTAA 93 333 730 Antisense
TGACGTGTTTAATTCCATTCCTTGA 341 571 743 Antisense
GTCAAATCTACTTGGAGCTCCACGG 181 465 782 Antisense
CCACGGCGGAGCACAGGAACACGCG 274 271 801 Antisense
GGAACACGCGAAATTGCTCAGGGAA 240 529 816 Antisense
Sequence Source Affymetrix Proprietary Database