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[180169_at]

Description C54D2.2 /REP_DB=WormBase Gene ID /WP=CE02559 /TR=Q18838 /GB=AAA79199.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 87      6grp_high1_10_10 > 77      4grp_highest_8_8 > 23      4grp_high_8_8 > 05      6grp_highest_nonorm > 93      6grp_total > 78      4grp_total > 03      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2176
1 2 3 4 range
A 257.7
(-2.8)
P 		203.6
(-3)
P 		218.5
(-2.9)
P 		1680.2
(3)
P 		1477
B 367.2
(-2.4)
P 		197.5
(-2.9)
P 		153.1
(-3)
P 		2133.6
(3)
P 		1981
C 635.3
(-1.7)
P 		233.4
(-2.8)
P 		163.5
(-3)
P 		2329
(3)
P 		2166
avr 420.1
(-2.2) 		211.5
(-2.9) 		178.4
(-3) 		2047.6
(3) 		1869

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 834
1 2 3 4 5 6 range
A 128.7
(-3)
P 		326.6
(-1.4)
P 		252.4
(-2)
P 		207.2
(-2.4)
P 		445.8
(-0.5)
P 		876.9
(3)
P 		748
B 198.5
(-3)
P 		349.1
(-1.8)
P 		265.5
(-2.5)
P 		270.5
(-2.4)
P 		453.5
(-1)
P 		959.6
(3)
P 		761
C 385.9
(-1.4)
P 		246.3
(-2.5)
P 		180.2
(-3)
P 		228.4
(-2.6)
P 		554.9
(-0.1)
P 		962.4
(3)
P 		782
avr 237.7
(-3) 		307.3
(-2.4) 		232.7
(-3) 		235.4
(-3) 		484.7
(-0.8) 		933
(3) 		700
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 419
1 2 3 4 range
A 93.8
(-1.5)
P 		44.2
(-3)
P 		57.1
(-2.6)
P 		245.9
(3)
P 		202
B 117.1
(-1.8)
P 		48.8
(-2.8)
P 		35.5
(-3)
P 		454.7
(3)
P 		419
C 210.3
(-0.3)
P 		67.1
(-2.8)
P 		57
(-3)
P 		392.7
(3)
P 		336
avr 140.4
(-1.3) 		53.4
(-2.9) 		49.9
(-3) 		364.4
(3) 		315

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 334
1 2 3 4 5 6 range
A 23.7
(-3)
P 		116.2
(-0.1)
P 		55
(-2)
P 		52.5
(-2.1)
P 		134.5
(0.5)
P 		213.5
(3)
P 		190
B 69.1
(-2.9)
P 		116.2
(-1.9)
P 		64.5
(-3)
P 		71.6
(-2.9)
P 		184.2
(-0.6)
P 		357.8
(3)
P 		293
C 143
(-0.9)
P 		75.1
(-2.4)
P 		45.9
(-3)
P 		45.9
(-3)
P 		179.6
(-0.1)
P 		322.2
(3)
P 		276
avr 78.6
(-2.4) 		102.5
(-1.8) 		55.1
(-3) 		56.7
(-3) 		166.1
(-0.3) 		297.8
(3) 		243
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180169_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16362
Sequence Type Exemplar sequence
Representative Public ID C54D2.2 NCBI
Target Description C54D2.2 /REP_DB=WormBase Gene ID /WP=CE02559 /TR=Q18838 /GB=AAA79199.1 /SUBMIT=ST.LOUIS /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_076924(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076924 NCBI Caenorhabditis elegans C54D2.2 (C54D2.2) mRNA, complete cds. 11/11 None
SNAP00000030441 ENSEMBL cdna:SNAP chromosome:CEL140:X:7838876:7839140:1 11/11 None
GENEFINDER00000030452 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:7838876:7839140:1 11/11 None
C54D2.2 ENSEMBL cdna:known chromosome:CEL140:X:7838876:7839140:1 gene:C54D2.2 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:7838874-7839139(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C54D2.2
Entrez Gene 183777 Entrez gene
SwissProt Q18838 EMBL-EBI
WormBase CE02559 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA79199 Hypothetical protein C54D2.2 [Caenorhabditis elegans] ref|NP_509325.1| C54D2.2 [Caenorhabditis elegans] 1.0E-34
blast CAE70309 Hypothetical protein CBG16831 [Caenorhabditis briggsae] 3.0E-32
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509325.1 1 7-24
C54D2.2 1 7-24
SNAP00000030441 1 7-24
GENEFINDER00000030452 1 7-24
Sequence
Target Sequence 
>C. ELEGANS:180169_AT
gaattggacacttcttccttttcgtcatccttactgttgctgtgttgtcaattccaacta
gttattcgaagagcaaaatgcttaataacatcttcaaacaaattcacaacaaaaaagccg
tcggagacgccttcccatacgagacctacggttttggagatgctggatac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATTGGACACTTCTTCCTTTTCGT 661 323 20 Antisense
TCATCCTTACTGTTGCTGTGTTGTC 601 621 44 Antisense
ACTGTTGCTGTGTTGTCAATTCCAA 428 97 52 Antisense
TTGTCAATTCCAACTAGTTATTCGA 700 707 64 Antisense
TCCAACTAGTTATTCGAAGAGCAAA 497 587 72 Antisense
GAGCAAAATGCTTAATAACATCTTC 106 391 90 Antisense
TGCTTAATAACATCTTCAAACAAAT 294 579 98 Antisense
CAAATTCACAACAAAAAAGCCGTCG 228 183 118 Antisense
TTCCCATACGAGACCTACGGTTTTG 65 687 151 Antisense
GAGACCTACGGTTTTGGAGATGCTG 286 395 160 Antisense
CTACGGTTTTGGAGATGCTGGATAC 300 5 165 Antisense
Sequence Source Affymetrix Proprietary Database