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[173755_at] helicase domain

Description CEC409_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R03D7.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C07409 /WB_GENE_ID=R03D7.2 /WP=CE01610 /CHR=2 /FEA=Genomic Cluster /DEF=helicase domain; C.elegans cDNA clone yk138d12 : 3prime end, single read.
Cluster 6grp_total > 85      4grp_total > 28      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 58
1 2 3 4 range
A 51.6
(3)
A 		40.8
(1.3)
A 		13
(-3)
A 		26.1
(-1)
A 		39
B 11.3
(-3)
A 		69.5
(3)
A 		49.6
(0.9)
A 		41.1
(0.1)
A 		58
C 54.2
(1.4)
A 		19
(-2.6)
A 		15.4
(-3)
A 		67.9
(3)
A 		53
avr 39
(1.1) 		43.1
(2.4) 		26
(-3) 		45
(3) 		19

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 89
1 2 3 4 5 6 range
A 11.8
(-3)
A 		11.6
(-3)
A 		44
(-0.7)
A 		96.9
(3)
A 		74.3
(1.4)
A 		68.8
(1)
A 		85
B 37.9
(3)
A 		29.4
(1.2)
A 		25.6
(0.4)
A 		13.3
(-2.2)
A 		9.8
(-2.9)
A 		9.4
(-3)
A 		29
C 8.3
(-3)
A 		10.1
(-2.7)
A 		9.1
(-2.9)
A 		36.7
(1.4)
A 		18.8
(-1.4)
A 		47.4
(3)
A 		39
avr 19.3
(-2.6) 		17
(-3) 		26.2
(-1.3) 		49
(3) 		34.3
(0.2) 		41.9
(1.7) 		32
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 18.8
(3)
A 		8.9
(-0.9)
A 		3.4
(-3)
A 		3.8
(-2.8)
A 		15
B 3.6
(-3)
A 		17.2
(3)
A 		11.5
(0.5)
A 		8.8
(-0.7)
A 		14
C 17.9
(3)
A 		5.5
(-3)
A 		5.4
(-3)
A 		11.4
(-0.1)
A 		13
avr 13.4
(3) 		10.5
(0.4) 		6.8
(-3) 		8
(-1.9) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 22
1 2 3 4 5 6 range
A 2.2
(-3)
A 		4.1
(-2.5)
A 		9.6
(-1)
A 		24.6
(3)
A 		22.4
(2.4)
A 		16.7
(0.9)
A 		22
B 13.2
(3)
A 		9.8
(0.9)
A 		6.2
(-1.3)
A 		3.5
(-3)
A 		4
(-2.7)
A 		3.5
(-3)
A 		10
C 3.1
(-2.6)
A 		3.1
(-2.6)
A 		2.3
(-3)
A 		7.4
(-0.8)
A 		6.1
(-1.3)
A 		15.9
(3)
A 		14
avr 6.2
(-2.5) 		5.7
(-3) 		6
(-2.7) 		11.8
(2.8) 		10.8
(1.9) 		12
(3) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173755_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23242
Sequence Type Exemplar sequence
Representative Public ID CEC409 NCBI
Target Description CEC409_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R03D7.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=C07409 /WB_GENE_ID=R03D7.2 /WP=CE01610 /CHR=2 /FEA=Genomic Cluster /DEF=helicase domain; C.elegans cDNA clone yk138d12 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_063953(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063953 NCBI Caenorhabditis elegans R03D7.2 (R03D7.2) mRNA, complete cds. 11/11 None
GENEFINDER00000040577 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10934775:10945478:-1 11/11 None
R03D7.2 ENSEMBL cdna:known chromosome:CEL140:II:10932699:10935051:-1 gene:R03D7.2 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
R03D7.3 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Public Domain and Genome References
Gene Title helicase domain
Ensembl R03D7.2
Entrez Gene 174682 Entrez gene
SwissProt Q09594 EMBL-EBI
WormBase CE01610 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA86856 Hypothetical protein R03D7.2 [Caenorhabditis elegans] ref|NP_496354.1| R03D7.2 [Caenorhabditis elegans] 0.0
blast CAA86857 Hypothetical protein R03D7.4 [Caenorhabditis elegans] ref|NP_496355.1| R03D7.4 [Caenorhabditis elegans] sp|Q09413|ELOA1_CAEEL Transcription elongation factor B polypeptide 3 (RNA polymerase II transcription factor SIII subunit A) (Elongin A) 0.0
blast AAC02594 Hypothetical protein F58H7.6 [Caenorhabditis elegans] ref|NP_500013.1| F58H7.6 [Caenorhabditis elegans] 1.0E-150
blast CAE73228 Hypothetical protein CBG20634 [Caenorhabditis briggsae] 1.0E-146
blast AAA98031 Hypothetical protein K08D10.5 [Caenorhabditis elegans] ref|NP_500503.1| K08D10.5 [Caenorhabditis elegans] 1.0E-136
blast CAE56861 Hypothetical protein CBG24691 [Caenorhabditis briggsae] 9.0E-37
Protein Domains
Database ID Description E-Value
Pfam IPR001584 EMBL-EBI Integrase, catalytic domain 4.8E-34
Pfam IPR001878 EMBL-EBI Zn-finger, CCHC type 4.4E-5
Pfam IPR000477 EMBL-EBI RNA-directed DNA polymerase (Reverse transcriptase) 6.8E-43
Pfam IPR010684 EMBL-EBI RNA polymerase II transcription factor SIII subunit A 4.3E-85
Sequence
Target Sequence 
>C. ELEGANS:173755_AT
tcaattcctcaataaccgagttatttcgcctactctatgcccacaaacttccccctaccg
taaccctgtgtgtgtgtgcgcacgcaagtgtgcgcgcgcgcgcgggggagcgcgcacctt
gtttacgccttctggacctttctgcggaggaatccagggctccgccctgccaccgcagag
gggtatataagacggcatttctatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAATTCCTCAATAACCGAGTTATT 282 633 1628 Antisense
AACCGAGTTATTTCGCCTACTCTAT 257 147 1641 Antisense
CGAGTTATTTCGCCTACTCTATGCC 177 251 1644 Antisense
CTGTGTGTGTGTGCGCACGCAAGTG 662 239 1693 Antisense
TGCGCACGCAAGTGTGCGCGCGCGC 622 581 1704 Antisense
CTTCTGGACCTTTCTGCGGAGGAAT 18 221 1756 Antisense
GGACCTTTCTGCGGAGGAATCCAGG 486 523 1761 Antisense
TGCGGAGGAATCCAGGGCTCCGCCC 60 583 1770 Antisense
CCCTGCCACCGCAGAGGGGTATATA 654 259 1792 Antisense
AGAGGGGTATATAAGACGGCATTTC 588 67 1804 Antisense
GGGTATATAAGACGGCATTTCTATC 119 497 1808 Antisense
Sequence Source Affymetrix Proprietary Database