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[176586_s_at] helicase

Description Y104H12BR.A /REP_DB=WormBase Gene ID /WP=CE23179 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_total > 37      4grp_total > 31      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 284
1 2 3 4 range
A 636
(3)
A 		369
(-2.6)
A 		351.8
(-3)
A 		558.5
(1.4)
A 		284
B 591.3
(3)
A 		442.2
(-3)
A 		448.6
(-2.7)
A 		499.2
(-0.7)
A 		149
C 560.3
(3)
P 		387
(-2.8)
A 		382.1
(-3)
A 		447.3
(-0.8)
A 		178
avr 595.9
(3) 		399.4
(-2.8) 		394.2
(-3) 		501.7
(0.2) 		202

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 298
1 2 3 4 5 6 range
A 484.6
(3)
A 		440.1
(1.4)
M 		362.2
(-1.3)
A 		341.7
(-2.1)
A 		315.6
(-3)
A 		480
(2.8)
A 		169
B 592.6
(3)
M 		479.1
(0.7)
A 		442
(-0)
A 		398.5
(-0.9)
A 		294.3
(-3)
A 		422.8
(-0.4)
A 		298
C 482.8
(1.7)
P 		450.3
(0.9)
A 		358.1
(-1.6)
A 		305.2
(-3)
A 		332.7
(-2.3)
A 		530.4
(3)
P 		225
avr 520
(3) 		456.5
(1.1) 		387.4
(-0.9) 		348.5
(-2) 		314.2
(-3) 		477.7
(1.8) 		206
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 156
1 2 3 4 range
A 231.6
(3)
A 		80.1
(-3)
A 		92
(-2.5)
A 		81.8
(-2.9)
A 		152
B 188.6
(3)
A 		109.2
(-2.6)
A 		103.9
(-3)
A 		106.4
(-2.8)
A 		85
C 185.5
(3)
P 		111.3
(-1)
A 		133.2
(0.1)
A 		75.4
(-3)
A 		110
avr 201.9
(3) 		100.2
(-2.4) 		109.7
(-1.9) 		87.9
(-3) 		114

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 145
1 2 3 4 5 6 range
A 89.3
(-2.2)
A 		156.5
(3)
M 		78.9
(-3)
A 		86.7
(-2.4)
A 		95.2
(-1.7)
A 		116.9
(-0.1)
A 		78
B 206.2
(3)
M 		159.5
(0.2)
A 		107.3
(-2.9)
A 		105.5
(-3)
A 		119.6
(-2.2)
A 		157.7
(0.1)
A 		101
C 179
(3)
P 		137.4
(0.9)
A 		91.1
(-1.5)
A 		61.4
(-3)
A 		107.6
(-0.6)
A 		177.5
(2.9)
P 		118
avr 158.2
(3) 		151.1
(2.4) 		92.4
(-2.4) 		84.5
(-3) 		107.5
(-1.1) 		150.7
(2.4) 		74
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176586_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19305
Sequence Type Exemplar sequence
Representative Public ID Y104H12BR.A NCBI
Target Description Y104H12BR.A /REP_DB=WormBase Gene ID /WP=CE23179 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
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_067662(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067662 NCBI Caenorhabditis elegans F53H1.1a (helicase) mRNA, complete cds. 11/11 A 
SNAP00000013765 ENSEMBL cdna:SNAP chromosome:CEL140:IV:1297406:1335883:-1 11/11 None
GENEFINDER00000013782 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1297400:1309644:-1 11/11 None
F53H1.1a ENSEMBL cdna:known chromosome:CEL140:IV:1297283:1309644:-1 gene:F53H1.1 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
176943 2 1 NM_067662 176586_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:1297405-1302100(-) 100.0 100.0
Public Domain and Genome References
Gene Title helicase
Ensembl F53H1.1
Entrez Gene 176943 Entrez gene
SwissProt Q965K2 EMBL-EBI
WormBase CE27427 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:262851_AT DEAD box RNA helicase, putative at
ATGENOME1:12047_AT DEAD box RNA helicase, putative at
CANINE:1602991_AT similar to DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 cfa
CANINE_2:CFAAFFX.2470.1.S1_S_AT similar to DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 cfa
DROSOPHILA_2:1638962_AT dm
DROSGENOME1:154064_AT dm
CHICKEN:GGA.10433.1.S1_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 gga
HG-U133_PLUS_2:202462_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 hs
HG-U133A:202462_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 hs
HG-U133A_2:202462_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 hs
HU35KSUBA:RC_AA256994_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 hs
U133_X3P:G7662317_3P_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 hs
U133_X3P:HS.123075.0.A1_3P_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 hs
HG-U133_PLUS_2:228039_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 hs
HG-U133B:228039_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 hs
HG-U95AV2:33237_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 hs
HG-U95E:88766_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 hs
HU35KSUBD:RC_C21113_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 hs
MOUSE430_2:1457744_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 mm
MOE430B:1457744_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 mm
MU11KSUBA:AA245372_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 mm
MOE430A:1424570_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 mm
MOUSE430A_2:1424570_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 mm
MOUSE430_2:1424570_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 mm
MOE430A:1424571_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 mm
MOUSE430A_2:1424571_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 mm
MOUSE430_2:1424571_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 mm
MOE430A:1424569_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 mm
MOUSE430A_2:1424569_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 mm
MOUSE430_2:1424569_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46 mm
MG-U74AV2:101423_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46, mRNA (cDNA clone MGC:31579 IMAGE:4505095) mm
MG-U74BV2:115147_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46, mRNA (cDNA clone MGC:31579 IMAGE:4505095) mm
MOE430B:1455103_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46, mRNA (cDNA clone MGC:31579 IMAGE:4505095) mm
MOUSE430_2:1455103_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46, mRNA (cDNA clone MGC:31579 IMAGE:4505095) mm
MG-U74BV2:164476_R_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46, mRNA (cDNA clone MGC:31579 IMAGE:4505095) mm
MU19KSUBA:TC24340_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46, mRNA (cDNA clone MGC:31579 IMAGE:4505095) mm
MU19KSUBB:TC28716_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46, mRNA (cDNA clone MGC:31579 IMAGE:4505095) mm
MU19KSUBB:TC28716_G_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46, mRNA (cDNA clone MGC:31579 IMAGE:4505095) mm
MU19KSUBC:TC40777_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 46, mRNA (cDNA clone MGC:31579 IMAGE:4505095) mm
RG-U34A:U25746_AT RNA helicase rn
RG-U34A:U25746_G_AT RNA helicase rn
RAE230A:1387912_AT RNA helicase rn
RAT230_2:1387912_AT RNA helicase rn
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid 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
Protein Similarities
Method ID Description E-Value
blast AAK68386 Hypothetical protein F53H1.1 [Caenorhabditis elegans] ref|NP_500063.1| F53H1.1a [Caenorhabditis elegans] 0.0
blast CAE70203 Hypothetical protein CBG16678 [Caenorhabditis briggsae] 0.0
blast NP_500062 F53H1.1b [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.9E-30
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 2.2E-86
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.9E-30
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 2.2E-86
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.9E-30
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 1.2E-41
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 4.2E-34
Sequence
Target Sequence 
>C. ELEGANS:176586_S_AT
ggaaaaccgcaatccgagaagcccagcagctcatcaggaaacgcgaaaaacgacagagaa
gccggaaaacgtgcagatcaggcgaagctgaaggccgaggagttgagtactcggcttaaa
ggagcatcacaagttgttcaacctgtggagaagacggctgctcagttgactgcagaggca
gtgctccgtggagcagaagttgctccggctcaaatgagtgctgcgatgcttgcaaaggag
aaagcgaatcggctcaacgagaagctcaattatttgggaggagaagcagctccaactcaa
cagcaagaagaagcgtgggaatatttcgaagaggaatgggatatcaatgatttcccgcaa
caagttcgttacaaaatttgctcccgagagtcagtgggccacgtggcagagctcgccgaa
gtcggaatttcagtccgtggagttcacgtaccgcccggaaaagagcccaaaaacggagag
cgccgacttcatttgttgctcgaagcgagaagtgaacgaaatttgaaggcggcaaaagag
gagatcatacgaattatgaaggaggctttcaggcaattgaccgctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAAAACCGCAATCCGAGAAGCCCA 136 529 481 Antisense
CCCAGCAGCTCATCAGGAAACGCGA 57 259 502 Antisense
AGAAGACGGCTGCTCAGTTGACTGC 65 75 629 Antisense
TGCAGAGGCAGTGCTCCGTGGAGCA 243 577 651 Antisense
GAAGTTGCTCCGGCTCAAATGAGTG 568 337 676 Antisense
GATTTCCCGCAACAAGTTCGTTACA 424 415 829 Antisense
TTGCTCCCGAGAGTCAGTGGGCCAC 688 701 858 Antisense
TGGCAGAGCTCGCCGAAGTCGGAAT 218 545 884 Antisense
TCAGTCCGTGGAGTTCACGTACCGC 617 621 910 Antisense
AGAGCGCCGACTTCATTTGTTGCTC 526 69 957 Antisense
GAGGCTTTCAGGCAATTGACCGCTC 663 403 1042 Antisense
Sequence Source Affymetrix Proprietary Database