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[187843_s_at] ATP-dependent RNA helicase

Description ZK686.2 /REP_DB=WormBase Gene ID /WP=CE00456 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=ATP-dependent RNA helicase
Cluster 6grp_highest_10_10 > 77      6grp_high1_10_10 > 86      4grp_highest_8_8 > 16      4grp_high_8_8 > 60      6grp_highest_nonorm > 82      6grp_total > 77      4grp_total > 59      6grp_highest_sub > Da      6grp_high1_sub > In      6grp_total_sub > Increase      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 330
1 2 3 4 range
A 319.7
(-0)
P 		434.6
(3)
P 		385.5
(1.7)
P 		204.8
(-3)
P 		230
B 408.9
(1.6)
P 		421.7
(2)
P 		458.9
(3)
P 		242.4
(-3)
P 		217
C 495.5
(2.1)
P 		470.8
(1.5)
P 		535
(3)
P 		284.5
(-3)
P 		251
avr 408
(1.6) 		442.4
(2.5) 		459.8
(3) 		243.9
(-3) 		216

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 328
1 2 3 4 5 6 range
A 245.9
(-3)
P 		348
(-0)
P 		361
(0.4)
P 		357
(0.3)
P 		325.3
(-0.7)
P 		450.6
(3)
P 		205
B 345.3
(-2.6)
P 		358.5
(-2.3)
P 		335.2
(-2.9)
P 		329.8
(-3)
P 		450.8
(-0)
P 		573.9
(3)
P 		244
C 298.7
(-3)
P 		416.9
(-0.3)
P 		334.7
(-2.2)
P 		340.7
(-2.1)
P 		404.5
(-0.6)
P 		564.6
(3)
P 		266
avr 296.6
(-3) 		374.5
(-1) 		343.6
(-1.8) 		342.5
(-1.8) 		393.5
(-0.5) 		529.7
(3) 		233
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 157
1 2 3 4 range
A 116.4
(3)
P 		94.3
(1.5)
P 		100.8
(1.9)
P 		30
(-3)
P 		86
B 130.4
(3)
P 		104.1
(1)
P 		106.3
(1.2)
P 		51.7
(-3)
P 		79
C 164
(2)
P 		135.4
(0.8)
P 		186.5
(3)
P 		48
(-3)
P 		139
avr 136.9
(3) 		111.3
(1.4) 		131.2
(2.6) 		43.2
(-3) 		94

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 169
1 2 3 4 5 6 range
A 45.3
(-3)
P 		123.8
(3)
P 		78.6
(-0.5)
P 		90.6
(0.5)
P 		98.2
(1)
P 		109.7
(1.9)
P 		79
B 120.1
(-1.2)
P 		119.3
(-1.3)
P 		81.4
(-3)
P 		87.3
(-2.7)
P 		183.1
(1.6)
P 		214
(3)
P 		133
C 110.7
(-0.9)
P 		127.2
(-0.1)
P 		85.2
(-2.2)
P 		68.5
(-3)
P 		130.9
(0.1)
P 		189
(3)
P 		121
avr 92
(-2.3) 		123.4
(-0.2) 		81.7
(-3) 		82.1
(-3) 		137.4
(0.7) 		170.9
(3) 		89
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187843_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6023
Sequence Type Exemplar sequence
Representative Public ID ZK686.2 NCBI
Target Description ZK686.2 /REP_DB=WormBase Gene ID /WP=CE00456 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=ATP-dependent RNA 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_066289(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066289 NCBI Caenorhabditis elegans ZK686.2 (ZK686.2) mRNA, complete cds. 11/11 None
SNAP00000038834 ENSEMBL cdna:SNAP chromosome:CEL140:III:7763756:7765972:-1 11/11 None
GENEFINDER00000038847 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7763760:7765972:-1 11/11 None
ZK686.2 ENSEMBL cdna:known chromosome:CEL140:III:7763648:7765975:-1 gene:ZK686.2 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
chrIII:7763753-7767109(-) 100.0 100.0
Public Domain and Genome References
Gene Title ATP-dependent RNA helicase
Ensembl ZK686.2
Entrez Gene 176088 Entrez gene
SwissProt P34668 EMBL-EBI
WormBase CE34464 Wormbase
Functional Annotations
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
4386 helicase activity inferred from electronic annotation QuickGO AmiGO
5509 calcium ion binding 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 AAP68928 Hypothetical protein ZK686.2 [Caenorhabditis elegans] ref|NP_498690.2| ZK686.2 [Caenorhabditis elegans] sp|P34668|YO12_CAEEL Putative ATP-dependent RNA helicase ZK686.2 in chromosome III 0.0
blast CAE57188 Hypothetical protein CBG00032 [Caenorhabditis briggsae] 0.0
blast D88511 ATP-dependent RNA helicase homolog [imported] - Caenorhabditis elegans 1.0E-166
Protein Domains
Database ID Description E-Value
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 2.0E-25
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 1.4E-50
Sequence
Target Sequence 
>C. ELEGANS:187843_S_AT
aacaggactttgatcttcgtcaatgaagtttcatcatcaaatcggctcgcgcacgttctt
aaagaattgtgcaaggatcagtttgaggtagactatttcacggctcagttattcggaaaa
cgacgttacaaaatgctcgaaaaattcaataaaaatgaaaaccgagttctgatctgctcg
gacgtgttggcaagaggaactgatttgaacaaggttgattgtgtcatcaactacaatttg
cctgccgatgacaaactattcgtgcacagagcaggaagaactggaagagctggacaagat
ggatatgtgattagtgttggagataaggaatcaaagagacttttcgtcaaaatgctaaaa
gttacaaatttatggggagatactgtagaagagcaaatggaagagtacatttttgaaaaa
gatatggatagatactcaaaagctttggaaagtctcaaagcaactgtctcgtcacaagcg
aaaaccggaggaagcagacaaattgctaaacgatccggatttgaagcaaagagaaaaagt
cgaccaaatgctcgcggagag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACAGGACTTTGATCTTCGTCAATG 165 137 1510 Antisense
AAGTTTCATCATCAAATCGGCTCGC 431 157 1535 Antisense
GCTCGCGCACGTTCTTAAAGAATTG 32 299 1554 Antisense
GGTAGACTATTTCACGGCTCAGTTA 606 501 1596 Antisense
ATGAAAACCGAGTTCTGATCTGCTC 665 43 1664 Antisense
TGATCTGCTCGGACGTGTTGGCAAG 223 565 1679 Antisense
ATCAACTACAATTTGCCTGCCGATG 506 27 1735 Antisense
GACAAACTATTCGTGCACAGAGCAG 92 367 1759 Antisense
AGTCTCAAAGCAACTGTCTCGTCAC 522 61 1960 Antisense
GTCTCGTCACAAGCGAAAACCGGAG 429 469 1975 Antisense
AAGTCGACCAAATGCTCGCGGAGAG 11 157 2046 Antisense
Sequence Source Affymetrix Proprietary Database