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[172190_x_at]

Description F59F4.2 /REP_DB=WormBase Gene ID /WP=CE11548 /TR=Q93838 /GB=CAB03157.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 19      6grp_high1_10_10 > 91      4grp_highest_8_8 > 22      4grp_high_8_8 > 14      6grp_highest_nonorm > 46      6grp_total > 92      4grp_total > 09      6grp_highest_sub > 05      6grp_high1_sub > 05      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 7259
1 2 3 4 range
A 2975.1
(-3)
P 		3595.4
(-2.5)
P 		4160.5
(-2)
P 		10043.7
(3)
P 		7069
B 3134.8
(-3)
P 		3591.2
(-2.6)
P 		3783.5
(-2.4)
P 		9752.6
(3)
P 		6618
C 2784.5
(-3)
P 		3456.2
(-2.4)
P 		3863.5
(-2.1)
P 		9800.8
(3)
P 		7016
avr 2964.8
(-3) 		3547.6
(-2.5) 		3935.8
(-2.2) 		9865.7
(3) 		6901

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2205
1 2 3 4 5 6 range
A 2567.4
(-0.1)
P 		2142.3
(-1.5)
P 		3530.2
(3)
P 		2617
(0)
P 		3093.8
(1.6)
P 		1674.1
(-3)
P 		1856
B 3433.8
(1.1)
P 		2894.7
(-1.1)
P 		2448.6
(-3)
P 		3353.9
(0.8)
P 		3879.5
(3)
P 		2778.5
(-1.6)
P 		1431
C 2711.1
(-1.2)
P 		3092.9
(0.5)
P 		2389.4
(-2.6)
P 		2292.8
(-3)
P 		3651.1
(3)
P 		2422.6
(-2.4)
P 		1358
avr 2904.1
(-0.1) 		2710
(-1) 		2789.4
(-0.6) 		2754.6
(-0.8) 		3541.5
(3) 		2291.7
(-3) 		1250
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1298
1 2 3 4 range
A 1083.2
(-0.4)
P 		780.5
(-3)
P 		1087.6
(-0.3)
P 		1470.2
(3)
P 		690
B 999.7
(-2.4)
P 		886.9
(-2.9)
P 		876.7
(-3)
P 		2078.3
(3)
P 		1202
C 921.7
(-3)
P 		993.7
(-2.4)
P 		1346.6
(0.5)
P 		1652.6
(3)
P 		731
avr 1001.5
(-2.2) 		887
(-3) 		1103.6
(-1.5) 		1733.7
(3) 		847

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1169
1 2 3 4 5 6 range
A 473.3
(-2.3)
P 		761.9
(1)
P 		768.8
(1.1)
P 		663.7
(-0.1)
P 		933.6
(3)
P 		407.6
(-3)
P 		526
B 1194.8
(0.7)
P 		963.5
(-0.7)
P 		594.6
(-3)
P 		888.3
(-1.2)
P 		1576.2
(3)
P 		1036.1
(-0.3)
P 		982
C 1004.9
(1.5)
P 		943.7
(1)
P 		608.2
(-1.8)
P 		461.1
(-3)
P 		1181.5
(3)
P 		811
(-0.1)
P 		720
avr 891
(-0.6) 		889.7
(-0.6) 		657.2
(-3) 		671
(-2.9) 		1230.4
(3) 		751.6
(-2) 		573
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172190_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17400
Sequence Type Exemplar sequence
Representative Public ID F59F4.2 NCBI
Target Description F59F4.2 /REP_DB=WormBase Gene ID /WP=CE11548 /TR=Q93838 /GB=CAB03157.1 /SUBMIT=HINXTON /CHR=X /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_078203(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078203 NCBI Caenorhabditis elegans F59F4.2 (F59F4.2) mRNA, complete cds. 11/11 None
SNAP00000031688 ENSEMBL cdna:SNAP chromosome:CEL140:X:15841517:15842040:1 11/11 None
GENEFINDER00000031694 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:15841517:15842040:1 11/11 None
F59F4.2.2 ENSEMBL cdna:known chromosome:CEL140:X:15841485:15842288:1 gene:F59F4.2 11/11 None
F59F4.2.1 ENSEMBL cdna:known chromosome:CEL140:X:15841489:15842289:1 gene:F59F4.2 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
chrX:15841516-15842040(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F59F4.2
Entrez Gene 181669 Entrez gene
SwissProt Q93838 EMBL-EBI
WormBase CE11548 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03157 Hypothetical protein F59F4.2 [Caenorhabditis elegans] ref|NP_510604.1| F59F4.2 [Caenorhabditis elegans] 1.0E-31
blast CAE69736 Hypothetical protein CBG16007 [Caenorhabditis briggsae] 2.0E-30
Protein Domains
Database ID Description E-Value
Pfam IPR010580 EMBL-EBI Ribosome associated membrane RAMP4 1.7E-45
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510604.1 1 36-58
F59F4.2.2 1 36-58
F59F4.2.1 1 36-58
SNAP00000031688 1 36-58
GENEFINDER00000031694 1 36-58
Sequence
Target Sequence 
>C. ELEGANS:172190_X_AT
atggccccaaagcaacgtatgacacttgctaacaagcaattctccaagaacgtgaacaac
cgcggaaatgttgccaagagcttgaagccagccgaggacaagtacccagccgccccatgg
ctcatcggacttttcgtctttgtcgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGCCCCAAAGCAACGTATGACAC 32 53 13 Antisense
GCCCCAAAGCAACGTATGACACTTG 655 285 16 Antisense
CAACGTATGACACTTGCTAACAAGC 326 187 25 Antisense
TGCTAACAAGCAATTCTCCAAGAAC 298 579 39 Antisense
TCTCCAAGAACGTGAACAACCGCGG 69 607 53 Antisense
AAGAACGTGAACAACCGCGGAAATG 233 149 58 Antisense
GAACAACCGCGGAAATGTTGCCAAG 113 353 66 Antisense
ACCGCGGAAATGTTGCCAAGAGCTT 647 87 71 Antisense
GTTGCCAAGAGCTTGAAGCCAGCCG 150 439 82 Antisense
TGAAGCCAGCCGAGGACAAGTACCC 581 571 95 Antisense
TCATCGGACTTTTCGTCTTTGTCGT 244 621 134 Antisense
Sequence Source Affymetrix Proprietary Database