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[175288_at]

Description AV176955_rc /REP_DB=TREMBL Accession /GB=AV176955 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk521a3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 54      6grp_high1_10_10 > 45      4grp_highest_8_8 > 58      4grp_high_8_8 > 33      6grp_highest_nonorm > 81      6grp_total > 46      4grp_total > 46      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 184
1 2 3 4 range
A 334.1
(3)
P 		236.6
(-0.3)
P 		157.8
(-3)
P 		186.8
(-2)
P 		176
B 340.4
(3)
P 		245.1
(-0.9)
P 		202
(-2.7)
P 		194.2
(-3)
P 		146
C 341.8
(3)
P 		208.4
(-2.6)
P 		235.2
(-1.5)
P 		199.5
(-3)
P 		142
avr 338.8
(3) 		230
(-1.5) 		198.3
(-2.8) 		193.5
(-3) 		145

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 169
1 2 3 4 5 6 range
A 237.3
(-1.1)
P 		288.2
(3)
P 		250.5
(-0)
P 		252.3
(0.1)
P 		213.9
(-3)
P 		217.3
(-2.7)
P 		74
B 284
(0.2)
P 		343.7
(2.4)
P 		348.7
(2.6)
P 		197.2
(-3)
P 		232.8
(-1.7)
P 		358.7
(3)
P 		162
C 273.8
(1.8)
P 		295.1
(3)
P 		190
(-3)
P 		261.8
(1.1)
P 		212.9
(-1.7)
P 		248.9
(0.4)
P 		105
avr 265
(0) 		309
(3) 		263.1
(-0.1) 		237.1
(-1.8) 		219.9
(-3) 		275
(0.7) 		89
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 94
1 2 3 4 range
A 121.7
(3)
P 		51.4
(-1.5)
P 		41.3
(-2.1)
P 		27.3
(-3)
P 		94
B 108.6
(3)
P 		60.5
(-1.3)
P 		46.8
(-2.5)
P 		41.4
(-3)
P 		67
C 113.1
(3)
P 		59.9
(-1)
P 		82
(0.7)
P 		33.6
(-3)
P 		80
avr 114.5
(3) 		57.3
(-1.3) 		56.7
(-1.3) 		34.1
(-3) 		80

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 90
1 2 3 4 5 6 range
A 43.7
(-3)
P 		102.5
(3)
P 		54.6
(-1.9)
P 		64
(-0.9)
P 		64.6
(-0.9)
P 		52.9
(-2.1)
P 		59
B 98.8
(0.4)
P 		114.4
(1.6)
P 		84.7
(-0.6)
P 		52.2
(-3)
P 		94.6
(0.1)
P 		133.8
(3)
P 		82
C 101.5
(3)
P 		90
(1.7)
P 		48.3
(-3)
P 		52.7
(-2.5)
P 		68.9
(-0.7)
P 		83.3
(0.9)
P 		53
avr 81.3
(0.3) 		102.3
(3) 		62.5
(-2.2) 		56.3
(-3) 		76
(-0.4) 		90
(1.4) 		46
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175288_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21234
Sequence Type Exemplar sequence
Representative Public ID AV176955 NCBI
Target Description AV176955_rc /REP_DB=TREMBL Accession /GB=AV176955 /CHR=3 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk521a3 : 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_001027485(11), NM_001027486(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027485 NCBI Caenorhabditis elegans K02F3.12a (K02F3.12) mRNA, complete cds. 11/11 None
NM_001027486 NCBI Caenorhabditis elegans K02F3.12b (K02F3.12) mRNA, complete cds. 11/11 None
GENEFINDER00000018130 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:858695:860036:1 11/11 None
SNAP00000018126 ENSEMBL cdna:SNAP chromosome:CEL140:III:859642:860036:1 11/11 None
K02F3.12a ENSEMBL cdna:known chromosome:CEL140:III:856563:860062:1 gene:K02F3.12 11/11 None
K02F3.12b ENSEMBL cdna:known chromosome:CEL140:III:856627:860036:1 gene:K02F3.12 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:859715-860002(+) 100.0 100.0
Public Domain and Genome References
Ensembl K02F3.12
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK21428 Hypothetical protein K02F3.12a [Caenorhabditis elegans] ref|NP_001022656.1| K02F3.12a [Caenorhabditis elegans] 0.0
blast AAW88393 Hypothetical protein K02F3.12b [Caenorhabditis elegans] ref|NP_001022657.1| K02F3.12b [Caenorhabditis elegans] 0.0
blast P46064 Putative ATP-dependent DNA helicase Q1 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 5.7E-26
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 4.9E-39
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 5.7E-26
Pfam IPR001410 EMBL-EBI DEAD/DEAH box helicase 4.9E-39
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000018130 2 7-29,103-122
Sequence
Target Sequence 
>C. ELEGANS:175288_AT
gaacatctgaactcggcaaaagatggaagtggaaggatcactggaaataagctcgtcgag
ctcctcacgaagaaattaaaaggatcgagaaatcgagagttttgtgaaaagctgattgtc
aatcttttgctagaaggctatcttcaagaagatttccattataccgtatattcagttatc
agctatgtggtaatcggatcgaaatggcgggtttata

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACATCTGAACTCGGCAAAAGATG 8 351 13 Antisense
GGATCACTGGAAATAAGCTCGTCGA 273 511 47 Antisense
ATAAGCTCGTCGAGCTCCTCACGAA 604 25 59 Antisense
GTCGAGCTCCTCACGAAGAAATTAA 12 475 67 Antisense
GAGTTTTGTGAAAAGCTGATTGTCA 249 399 109 Antisense
GCTGATTGTCAATCTTTTGCTAGAA 269 295 123 Antisense
AATCTTTTGCTAGAAGGCTATCTTC 595 169 133 Antisense
AGAAGATTTCCATTATACCGTATAT 564 73 159 Antisense
TACCGTATATTCAGTTATCAGCTAT 596 649 174 Antisense
TCAGCTATGTGGTAATCGGATCGAA 176 625 191 Antisense
ATCGGATCGAAATGGCGGGTTTATA 9 9 205 Antisense
Sequence Source Affymetrix Proprietary Database