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[188579_s_at] helicase

Description H27M09.1 /REP_DB=WormBase Gene ID /WP=CE23832 /TR=Q9N5K1 /GB=AAF39907.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation /DEF=helicase
Cluster 6grp_total > 57      4grp_total > 55      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 151
1 2 3 4 range
A 371.2
(3)
A 		330.1
(0.1)
A 		295.9
(-2.3)
A 		286
(-3)
A 		85
B 362.3
(3)
M 		253.3
(-3)
A 		311.3
(0.2)
A 		279.4
(-1.6)
A 		109
C 404.4
(3)
A 		267.4
(-2.6)
A 		317.2
(-0.5)
A 		256.9
(-3)
A 		148
avr 379.3
(3) 		283.6
(-2.5) 		308.1
(-1.1) 		274.1
(-3) 		105

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 187
1 2 3 4 5 6 range
A 348.5
(0.6)
P 		323.4
(-1.1)
M 		293.9
(-3)
A 		328.6
(-0.7)
A 		305.6
(-2.2)
P 		385.5
(3)
M 		92
B 327.5
(-2.5)
A 		322
(-2.8)
P 		340.4
(-1.9)
A 		318.4
(-3)
A 		322.6
(-2.8)
A 		435.4
(3)
P 		117
C 311.2
(-0.1)
A 		371.6
(2.8)
P 		248.8
(-3)
A 		291.8
(-1)
P 		306.7
(-0.3)
A 		376.1
(3)
P 		127
avr 329.1
(-1) 		339
(-0.4) 		294.4
(-3) 		312.9
(-1.9) 		311.6
(-2) 		399
(3) 		105
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 93
1 2 3 4 range
A 135.2
(3)
A 		71.7
(-1.1)
A 		77.4
(-0.7)
A 		41.9
(-3)
A 		93
B 115.5
(3)
M 		62.6
(-2.7)
A 		72.1
(-1.7)
A 		59.5
(-3)
A 		56
C 133.9
(3)
A 		76.9
(-0.8)
A 		110.5
(1.5)
A 		43.3
(-3)
A 		91
avr 128.2
(3) 		70.4
(-1.3) 		86.7
(-0.1) 		48.2
(-3) 		80

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 104
1 2 3 4 5 6 range
A 64.2
(-3)
P 		115
(3)
M 		64
(-3)
A 		83.3
(-0.7)
A 		92.2
(0.3)
P 		93.9
(0.5)
M 		51
B 114
(-0.6)
A 		107.2
(-1.2)
P 		82.7
(-3)
A 		84.3
(-2.9)
A 		131.1
(0.6)
A 		162.4
(3)
P 		80
C 115.3
(2.1)
A 		113.4
(1.9)
P 		63.3
(-2.6)
A 		58.7
(-3)
P 		99.3
(0.6)
A 		125.9
(3)
P 		67
avr 97.8
(-0.1) 		111.9
(1.4) 		70
(-3) 		75.4
(-2.4) 		107.5
(0.9) 		127.4
(3) 		57
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188579_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1024
Sequence Type Exemplar sequence
Representative Public ID H27M09.1 NCBI
Target Description H27M09.1 /REP_DB=WormBase Gene ID /WP=CE23832 /TR=Q9N5K1 /GB=AAF39907.1 /SUBMIT=ST.LOUIS /CHR=1 /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_059561(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059561 NCBI Caenorhabditis elegans H27M09.1 (helicase) mRNA, complete cds. 11/11 A 
SNAP00000019138 ENSEMBL cdna:SNAP chromosome:CEL140:I:6859513:6862196:1 11/11 None
GENEFINDER00000019143 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6859513:6862196:1 11/11 None
H27M09.1 ENSEMBL cdna:known chromosome:CEL140:I:6859504:6862251:1 gene:H27M09.1 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
chrI:6859443-6862127(+) 96.35 100.0
Public Domain and Genome References
Gene Title helicase
Ensembl H27M09.1
Entrez Gene 172413 Entrez gene
SwissProt Q9N5K1 EMBL-EBI
WormBase CE23832 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:248442_AT DEAD-box protein abstrakt, putative at
CANINE:1606067_AT similar to Probable ATP-dependent helicase DDX41 (DEAD-box protein 41) (DEAD-box protein abstrakt homolog) cfa
CANINE_2:CFA.17269.1.S1_AT similar to Probable ATP-dependent helicase DDX41 (DEAD-box protein 41) (DEAD-box protein abstrakt homolog) cfa
CANINE_2:CFA.17269.1.S1_S_AT similar to Probable ATP-dependent helicase DDX41 (DEAD-box protein 41) (DEAD-box protein abstrakt homolog) cfa
CANINE_2:CFA.3375.1.S1_S_AT similar to Probable ATP-dependent helicase DDX41 (DEAD-box protein 41) (DEAD-box protein abstrakt homolog) cfa
DROSOPHILA_2:1623353_AT abstrakt dm
DROSGENOME1:154450_AT abstrakt dm
CHICKEN:GGA.17098.1.S1_S_AT similar to DEAD-box protein abstrakt homolog (DEAD-box protein 41) gga
CHICKEN:GGAAFFX.25721.1.S1_AT similar to DEAD-box protein abstrakt homolog (DEAD-box protein 41) gga
HG-U133_PLUS_2:217840_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
HG-U133A:217840_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
HG-FOCUS:217840_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
HG-U133A_2:217840_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
HU35KSUBA:RC_AA099397_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
U133_X3P:G7705259_3P_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
U133_X3P:G7705259_3P_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
U133_X3P:217840_3P_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
HG-U95C:65559_S_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
HG-U95C:65567_I_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
HG-U95C:65568_R_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 hs
MU11KSUBA:AA541973_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 mm
MG-U74AV2:160663_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 mm
MOE430A:1423814_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 mm
MOUSE430A_2:1423814_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 mm
MOUSE430_2:1423814_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 mm
MU19KSUBB:TC27591_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 (Ddx41), mRNA mm
RG-U34C:RC_AI232878_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 (predicted) rn
RAE230A:1372377_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 (predicted) rn
RAT230_2:1372377_AT DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 (predicted) 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 AAF39907 Hypothetical protein H27M09.1 [Caenorhabditis elegans] ref|NP_491962.1| H27M09.1 [Caenorhabditis elegans] 0.0
blast CAE67294 Hypothetical protein CBG12746 [Caenorhabditis briggsae] 0.0
blast XP_392069 PREDICTED: similar to ENSANGP00000017814 [Apis mellifera] 1.0E-177
Protein Domains
Database ID Description E-Value
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 4.1E-32
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 9.8E-69
Sequence
Target Sequence 
>C. ELEGANS:188579_S_AT
cggagatgtcagtgctttccgacttgaaacaattactcgcagaagcagggcaggaacttc
cagaatttctcaaaatgttggctggtgacgaggagggaactgctccagctggcacaaatg
cggaaaagggatgcgcatactgctccggtctgggtcatcgcatcacagattgtccaaaac
tcgctggaatcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGGAGATGTCAGTGCTTTCCGACTT 269 243 1658 Antisense
TTCCGACTTGAAACAATTACTCGCA 446 699 1674 Antisense
ATTACTCGCAGAAGCAGGGCAGGAA 483 13 1689 Antisense
GGCAGGAACTTCCAGAATTTCTCAA 539 535 1706 Antisense
GAATTTCTCAAAATGTTGGCTGGTG 382 325 1720 Antisense
AATGTTGGCTGGTGACGAGGAGGGA 559 157 1731 Antisense
GACGAGGAGGGAACTGCTCCAGCTG 158 379 1744 Antisense
CTGCTCCAGCTGGCACAAATGCGGA 239 237 1757 Antisense
GGAAAAGGGATGCGCATACTGCTCC 240 527 1779 Antisense
GGTCATCGCATCACAGATTGTCCAA 385 503 1810 Antisense
GATTGTCCAAAACTCGCTGGAATCG 396 435 1825 Antisense
Sequence Source Affymetrix Proprietary Database