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[188382_s_at] helicase

Description C52B9.8 /REP_DB=WormBase Gene ID /WP=CE27114 /TR=Q22944 /GB=AAK39219.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=helicase
Cluster 6grp_highest_10_10 > 64      6grp_high1_10_10 > 46      4grp_highest_8_8 > 44      4grp_high_8_8 > 08      6grp_highest_nonorm > 82      6grp_total > 46      4grp_total > 31      6grp_highest_sub > Cu      6grp_high1_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 365
1 2 3 4 range
A 492.5
(3)
P 		159.2
(-3)
P 		204.4
(-2.2)
P 		306.1
(-0.4)
P 		333
B 462.6
(3)
P 		158.5
(-2.7)
P 		143.5
(-3)
P 		380.2
(1.5)
P 		319
C 508.4
(3)
P 		167.9
(-3)
P 		249.8
(-1.6)
P 		370.6
(0.6)
P 		341
avr 487.8
(3) 		161.9
(-3) 		199.2
(-2.3) 		352.3
(0.5) 		326

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 388
1 2 3 4 5 6 range
A 262.8
(-1.3)
P 		345.3
(3)
P 		317.1
(1.5)
P 		264.2
(-1.2)
P 		229.3
(-3)
P 		344.1
(2.9)
P 		116
B 519.1
(2.8)
P 		406.7
(0.8)
P 		366.6
(0)
P 		288.2
(-1.4)
P 		198.4
(-3)
P 		531.2
(3)
P 		333
C 418.8
(2.7)
P 		432.7
(3)
P 		269.4
(-0.4)
P 		319.8
(0.6)
P 		143.7
(-3)
P 		434.3
(3)
P 		291
avr 400.2
(2.1) 		394.9
(2) 		317.7
(0.1) 		290.7
(-0.6) 		190.5
(-3) 		436.5
(3) 		246
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 146
1 2 3 4 range
A 179.3
(3)
P 		34.6
(-3)
P 		53.4
(-2.2)
P 		44.8
(-2.6)
P 		145
B 147.5
(3)
P 		39.1
(-2.7)
P 		33.2
(-3)
P 		81
(-0.5)
P 		114
C 168.3
(3)
P 		48.3
(-3)
P 		87.1
(-1.1)
P 		62.5
(-2.3)
P 		120
avr 165
(3) 		40.7
(-3) 		57.9
(-2.2) 		62.8
(-1.9) 		124

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 152
1 2 3 4 5 6 range
A 48.4
(-3)
P 		122.8
(3)
P 		69.1
(-1.3)
P 		67
(-1.5)
P 		69.2
(-1.3)
P 		83.8
(-0.1)
P 		74
B 180.6
(2.1)
P 		135.4
(-0.1)
P 		89
(-2.4)
P 		76.3
(-3)
P 		80.6
(-2.8)
P 		198.1
(3)
P 		122
C 155.2
(3)
P 		132
(1.7)
P 		68.6
(-1.8)
P 		64.3
(-2)
P 		46.5
(-3)
P 		145.4
(2.5)
P 		109
avr 128.1
(1.9) 		130.1
(2) 		75.6
(-2.2) 		69.2
(-2.7) 		65.4
(-3) 		142.4
(3) 		77
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188382_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17250
Sequence Type Exemplar sequence
Representative Public ID C52B9.8 NCBI
Target Description C52B9.8 /REP_DB=WormBase Gene ID /WP=CE27114 /TR=Q22944 /GB=AAK39219.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=helicase
Cluster Evidence This cluster is supported by a 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_076335(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076335 NCBI Caenorhabditis elegans C52B9.8 (helicase) mRNA, complete cds. 11/11 None
C52B9.8 ENSEMBL cdna:known chromosome:CEL140:X:4297849:4303158:-1 gene:C52B9.8 11/11 A 
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:4298069-4302618(-) 96.45 100.0
Public Domain and Genome References
Gene Title helicase
Ensembl C52B9.8
Entrez Gene 180705 Entrez gene
SwissProt Q22944 EMBL-EBI
WormBase CE27114 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:13063_AT chromatin remodeling protein, putative (SYD) at
ATGENOME1:16400_AT chromatin remodeling protein, putative (SYD) at
ATH1-121501:265542_AT chromatin remodeling protein, putative (SYD) at
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
9307 DNA restriction-modification system inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
4386 helicase activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
8026 ATP-dependent helicase activity inferred from electronic annotation QuickGO AmiGO
15668 type III site-specific deoxyribonuclease activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast NP_508736 C52B9.8 [Caenorhabditis elegans] gb|AAK39219.1| Hypothetical protein C52B9.8 [Caenorhabditis elegans] 0.0
blast CAE68557 Hypothetical protein CBG14390 [Caenorhabditis briggsae] 0.0
blast CAA92978 Hypothetical protein F01G4.1 [Caenorhabditis elegans] emb|CAA92768.1| Hypothetical protein F01G4.1 [Caenorhabditis elegans] ref|NP_502082.1| Phasmid Socket Absent family member (psa-4) [Caenorhabditis elegans] gb|AAG16655.1| SWI2/SNF2-like protein; PSA-4 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000330 EMBL-EBI SNF2 related domain 1.0E-126
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 2.3E-26
Sequence
Target Sequence 
>C. ELEGANS:188382_S_AT
cgaagcgatgatgacgactcgtctccaaagaagaaaaaacatcgcgacagtgacgagtct
tcagaaaagaagaagaaaaagcacaagcatgatagtgattcggcattaaagctgcgagag
ggatcacctttgagtgtagacaaggaaaagtctccgatgaagattcgaattggacagggt
caaccttccatatcattagcagcgaatgaagataaaaatcaccctccgatcaaactcaag
ttgaatgttaagttcaatatgcccagtcaggagactgatggttcgaaaaaagataaaaag
gagccacataaagaaaaagaaaaagacaaggaaaaggaaaaggaagaggacaaaggtaaa
gagaaggagaagcacaaagataaggacaaggataaggagcacaagaagaagtcccgtgaa
gatgaaactgaagaggagcgtcgtgctcgaaaagaagcaaaacgcctgaagcgtcaaaaa
gaggaacaggaggacgacgctaaacttcaggagaaacttgctcgaaaggctgca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGAAGCGATGATGACGACTCGTCTC 3 253 3169 Antisense
TGACGACTCGTCTCCAAAGAAGAAA 226 563 3180 Antisense
AACATCGCGACAGTGACGAGTCTTC 528 137 3206 Antisense
GTGATTCGGCATTAAAGCTGCGAGA 450 485 3263 Antisense
GCTGCGAGAGGGATCACCTTTGAGT 710 295 3279 Antisense
GAATTGGACAGGGTCAACCTTCCAT 364 321 3335 Antisense
CAACCTTCCATATCATTAGCAGCGA 296 187 3349 Antisense
TCACCCTCCGATCAAACTCAAGTTG 317 627 3387 Antisense
GTTAAGTTCAATATGCCCAGTCAGG 610 445 3415 Antisense
GGAGGACGACGCTAAACTTCAGGAG 13 515 3657 Antisense
GGAGAAACTTGCTCGAAAGGCTGCA 402 517 3678 Antisense
Sequence Source Affymetrix Proprietary Database