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[187847_at] ATP-dependent RNA helicase

Description ZK686.1 /REP_DB=WormBase Gene ID /WP=CE00455 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=ATP-dependent RNA helicase
Cluster 6grp_high1_10_10 > 49      4grp_high_8_8 > 28      6grp_total > 39      4grp_total > 35      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 113
1 2 3 4 range
A 85.1
(-3)
M 		114.2
(-1.5)
P 		95.6
(-2.4)
M 		198.3
(3)
P 		113
B 113.2
(-0.2)
P 		138.3
(3)
P 		97.1
(-2.2)
P 		91.1
(-3)
P 		47
C 135.7
(-1.7)
P 		188.3
(3)
P 		120.7
(-3)
M 		142.1
(-1.1)
P 		68
avr 111.3
(-2) 		146.9
(3) 		104.5
(-3) 		143.8
(2.6) 		42

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 74
1 2 3 4 5 6 range
A 108.7
(2.8)
A 		69.8
(-1.3)
P 		73.9
(-0.9)
P 		53.9
(-3)
A 		110.9
(3)
P 		93.9
(1.2)
P 		57
B 91.4
(2)
P 		80.3
(0.6)
P 		53.3
(-3)
A 		60.5
(-2)
A 		71.7
(-0.6)
P 		98.6
(3)
P 		45
C 127.1
(3)
P 		69.7
(-3)
P 		73.6
(-2.6)
A 		86.9
(-1.2)
P 		103.8
(0.6)
P 		110
(1.2)
P 		57
avr 109.1
(3) 		73.3
(-2.1) 		66.9
(-3) 		67.1
(-3) 		95.5
(1.1) 		100.8
(1.8) 		42
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 35
1 2 3 4 range
A 31
(3)
M 		24.8
(-3)
P 		25
(-2.8)
M 		29
(1.1)
P 		6
B 36.1
(3)
P 		34.2
(2.3)
P 		22.5
(-1.9)
P 		19.4
(-3)
P 		17
C 44.9
(1.2)
P 		54.1
(3)
P 		42.1
(0.6)
M 		24
(-3)
P 		30
avr 37.3
(2.8) 		37.7
(3) 		29.9
(-0.4) 		24.1
(-3) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 34
1 2 3 4 5 6 range
A 20
(-1.1)
A 		24.8
(0.4)
P 		16.1
(-2.3)
P 		13.7
(-3)
A 		33.5
(3)
P 		22.9
(-0.2)
P 		20
B 31.8
(1.7)
P 		26.7
(0.5)
P 		12.9
(-3)
A 		16
(-2.2)
A 		29.1
(1.1)
P 		36.8
(3)
P 		24
C 47.1
(3)
P 		21.3
(-2.2)
P 		18.7
(-2.8)
A 		17.5
(-3)
P 		33.6
(0.3)
P 		36.8
(0.9)
P 		30
avr 33
(3) 		24.3
(-0) 		15.9
(-2.9) 		15.7
(-3) 		32.1
(2.7) 		32.2
(2.7) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187847_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6546
Sequence Type Exemplar sequence
Representative Public ID ZK686.1 NCBI
Target Description ZK686.1 /REP_DB=WormBase Gene ID /WP=CE00455 /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 Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_066292
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
ZK686.1 ENSEMBL cdna:known chromosome:CEL140:III:7773057:7773746:1 gene:ZK686.1 None
SNAP00000038840 ENSEMBL cdna:SNAP chromosome:CEL140:III:7773180:7773586:1 None
GENEFINDER00000038843 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7773180:7773950:1 None
NM_066292 NCBI Caenorhabditis elegans ZK686.1 (ZK686.1) mRNA, complete cds. None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:7772481-7773948(+) 100.0 100.0
Public Domain and Genome References
Gene Title ATP-dependent RNA helicase
Ensembl ZK686.1
Entrez Gene 191404 Entrez gene
SwissProt P34667 EMBL-EBI
WormBase CE34463 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6412 protein biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5840 ribosome inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3735 structural constituent of ribosome inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAA28221 Hypothetical protein ZK686.1 [Caenorhabditis elegans] ref|NP_498693.2| ZK686.1 [Caenorhabditis elegans] sp|P34667|YO11_CAEEL Hypothetical protein ZK686.1 in chromosome III 1.0E-18
blast AAA28221 Hypothetical protein ZK686.1 [Caenorhabditis elegans] ref|NP_498693.2| ZK686.1 [Caenorhabditis elegans] sp|P34667|YO11_CAEEL Hypothetical protein ZK686.1 in chromosome III 2.0E-18
blast CAA21573 Hypothetical protein Y106G6H.3 [Caenorhabditis elegans] ref|NP_492728.1| Ribosomal Protein, Large subunit family member (rpl-30) [Caenorhabditis elegans] 4.0E-16
blast AAN05584 ribosomal protein L30 [Argopecten irradians] 6.0E-11
blast AAA28221 Hypothetical protein ZK686.1 [Caenorhabditis elegans] ref|NP_498693.2| ZK686.1 [Caenorhabditis elegans] sp|P34667|YO11_CAEEL Hypothetical protein ZK686.1 in chromosome III 2.0E-10
Sequence
Target Sequence 
>C. ELEGANS:187847_AT
atggtttgggccattttttgctcatttctgatcttcattcaacttttgcttctcaatatt
ctcatccaggccaagacacccagtttctcttccggctgattttctcttacttggaggagc
catctctttctgtgctcttttttcctttcacatcaatattgtttcttatttacagagcga
ttatctacaacgtctacagcggtcacacaggaatcttctcgaagttcaccaatgctgaga
acatcaacttccgactctccatggttatgaagacaggacaatacgtcctttacgagcaga
agctgaagtcgcttctcaacgaaaatgccaagcttgtcatcaacactaagcaccgagaac
cgatcaatacgtttcgactatctgtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGTTTGGGCCATTTTTTGCTCAT 460 51 77 Antisense
TGCTCATTTCTGATCTTCATTCAAC 398 581 95 Antisense
TTCTCAATATTCTCATCCAGGCCAA 538 691 126 Antisense
TTCCGGCTGATTTTCTCTTACTTGG 365 699 166 Antisense
CTCTTTTTTCCTTTCACATCAATAT 187 231 211 Antisense
TCTACAACGTCTACAGCGGTCACAC 583 613 260 Antisense
CGGTCACACAGGAATCTTCTCGAAG 1 245 276 Antisense
GGACAATACGTCCTTTACGAGCAGA 204 527 352 Antisense
AATGCCAAGCTTGTCATCAACACTA 651 165 400 Antisense
TCAACACTAAGCACCGAGAACCGAT 481 621 416 Antisense
GATCAATACGTTTCGACTATCTGTT 200 423 438 Antisense
Sequence Source Affymetrix Proprietary Database