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[189236_s_at] DNA polymerase

Description W03A3.2 /REP_DB=WormBase Gene ID /WP=CE14486 /TR=Q23133 /GB=AAB93325.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=DNA polymerase
Cluster 6grp_high1_10_10 > 77      6grp_total > 77      4grp_total > 37      6grp_high1_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 113
1 2 3 4 range
A 123
(3)
P 		66.3
(-0)
A 		10
(-3)
A 		97.9
(1.7)
P 		113
B 66.4
(0.4)
P 		66.7
(0.4)
A 		23.8
(-3)
A 		99.6
(3)
A 		76
C 63.6
(1.1)
A 		60.8
(0.9)
A 		85.5
(3)
A 		14.7
(-3)
A 		71
avr 84.3
(3) 		64.6
(0.3) 		39.8
(-3) 		70.7
(1.2) 		45

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 332
1 2 3 4 5 6 range
A 11.4
(-3)
A 		147.3
(2)
P 		70.3
(-0.8)
P 		80.6
(-0.4)
P 		119.1
(1)
P 		173.3
(3)
P 		162
B 83.4
(-2.5)
P 		66
(-2.9)
P 		61.2
(-3)
P 		82
(-2.6)
P 		146.7
(-1.2)
P 		343.3
(3)
P 		282
C 51.9
(-3)
A 		103.6
(-1.4)
P 		67.9
(-2.5)
M 		183.6
(1)
P 		68
(-2.5)
P 		250.1
(3)
P 		198
avr 48.9
(-3) 		105.6
(-1.4) 		66.5
(-2.5) 		115.4
(-1.1) 		111.3
(-1.2) 		255.6
(3) 		207
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 42
1 2 3 4 range
A 44.8
(3)
P 		14.4
(-1.3)
A 		2.6
(-3)
A 		14.3
(-1.3)
P 		42
B 21.2
(3)
P 		16.5
(1.2)
A 		5.5
(-3)
A 		21.2
(3)
A 		16
C 21.1
(1.1)
A 		17.5
(0.3)
A 		29.8
(3)
A 		2.5
(-3)
A 		27
avr 29
(3) 		16.1
(-1.7) 		12.6
(-3) 		12.7
(-3) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 126
1 2 3 4 5 6 range
A 2.1
(-3)
A 		52.4
(3)
P 		15.3
(-1.4)
P 		20.4
(-0.8)
P 		35.9
(1)
P 		42.2
(1.8)
P 		50
B 29
(-2.3)
P 		22
(-2.6)
P 		14.9
(-3)
P 		21.7
(-2.6)
P 		59.6
(-0.6)
P 		128
(3)
P 		113
C 19.2
(-2.8)
A 		31.6
(-1.7)
P 		17.3
(-3)
M 		36.9
(-1.2)
P 		22
(-2.6)
P 		83.7
(3)
P 		66
avr 16.8
(-2.9) 		35.3
(-1.3) 		15.8
(-3) 		26.3
(-2.1) 		39.2
(-1) 		84.6
(3) 		69
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189236_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6160
Sequence Type Exemplar sequence
Representative Public ID W03A3.2 NCBI
Target Description W03A3.2 /REP_DB=WormBase Gene ID /WP=CE14486 /TR=Q23133 /GB=AAB93325.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=DNA polymerase
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_065849(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065849 NCBI Caenorhabditis elegans W03A3.2 (W03A3.2) mRNA, complete cds. 11/11 A 
SNAP00000017286 ENSEMBL cdna:SNAP chromosome:CEL140:III:5790270:5795195:-1 11/11 None
GENEFINDER00000017292 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:5791228:5798866:-1 11/11 None
W03A3.2 ENSEMBL cdna:known chromosome:CEL140:III:5791120:5797852:-1 gene:W03A3.2 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
chrIII:5791226-5797851(-) 96.97 100.0
Public Domain and Genome References
Gene Title DNA polymerase
Ensembl W03A3.2
Entrez Gene 175810 Entrez gene
WormBase CE38982 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.17880.1.S1_S_AT similar to DNA polymerase theta (DNA polymerase eta) cfa
DROSOPHILA_2:1635214_AT mutagen-sensitive 308 dm
DROSGENOME1:142745_AT mutagen-sensitive 308 dm
CHICKEN:GGA.18439.1.S1_S_AT similar to DNA polymerase theta isoform 1; polymerase (DNA-directed), theta gga
CHICKEN:GGAAFFX.9459.1.S1_S_AT similar to DNA polymerase theta isoform 1; polymerase (DNA-directed), theta gga
CHICKEN:GGAAFFX.9473.1.S1_S_AT similar to DNA polymerase theta isoform 1; polymerase (DNA-directed), theta gga
CHICKEN:GGAAFFX.9474.1.S1_S_AT similar to DNA polymerase theta isoform 1; polymerase (DNA-directed), theta gga
HG-U133_PLUS_2:207746_AT polymerase (DNA directed), theta hs
HG-U133A:207746_AT polymerase (DNA directed), theta hs
HG-U133A_2:207746_AT polymerase (DNA directed), theta hs
HG-U133_PLUS_2:219510_AT polymerase (DNA directed), theta hs
HG-U133A:219510_AT polymerase (DNA directed), theta hs
HG-FOCUS:219510_AT polymerase (DNA directed), theta hs
HG-U133A_2:219510_AT polymerase (DNA directed), theta hs
U133_X3P:G7662545_3P_AT polymerase (DNA directed), theta hs
U133_X3P:G5729983_3P_AT polymerase (DNA directed), theta hs
HG-U95E:89003_AT polymerase (DNA directed), theta hs
HG-U95D:86387_AT Polymerase (DNA directed), theta hs
MOE430B:1453551_AT polymerase (DNA directed), theta mm
MOUSE430_2:1453551_AT polymerase (DNA directed), theta mm
Protein Similarities
Method ID Description E-Value
blast NP_498250 W03A3.2 [Caenorhabditis elegans] 0.0
blast CAE64393 Hypothetical protein CBG09083 [Caenorhabditis briggsae] 1.0E-161
blast CAE64393 Hypothetical protein CBG09083 [Caenorhabditis briggsae] 1.0E-139
blast O52225 DNA polymerase I, thermostable (TFI polymerase 1) gb|AAC46079.1| thermostable DNA polymerase [Thermus filiformis] 2.0E-54
Protein Domains
Database ID Description E-Value
Pfam IPR001098 EMBL-EBI DNA-directed DNA polymerase 6.5E-48
Pfam IPR001098 EMBL-EBI DNA-directed DNA polymerase 5.0E-56
Pfam IPR001098 EMBL-EBI DNA-directed DNA polymerase 5.0E-56
Sequence
Target Sequence 
>C. ELEGANS:189236_S_AT
gcttcgtgttctggcacatttgagcaatgattcgaatcttgtcaatttaatcacatcgga
tagagatttatttgaagaactctcaattcaatggaatttcccacgagatgctgttaaaca
gctttgctatggtttgatctatggaatgggcgccaaaagtttatcggagttgacaagaat
gagcatagaagatgctgaaaagatgctaaaggcgttttttgcaatgttccctggtgtaag
aagctatatcaacgaaacaaaggaaaaagtttgcaaagaagagccaatatcaactattat
tggaagaagaacaattataaaagcaagtgggattggagaagaaagagcgagaattgaacg
agttgctgtgaattatacgattcaaggatctgctagcgagatattt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTTCGTGTTCTGGCACATTTGAGC 57 307 3015 Antisense
GAATCTTGTCAATTTAATCACATCG 15 329 3048 Antisense
GAAGAACTCTCAATTCAATGGAATT 163 341 3088 Antisense
GGAATTTCCCACGAGATGCTGTTAA 166 533 3107 Antisense
ACAGCTTTGCTATGGTTTGATCTAT 340 109 3132 Antisense
TTGATCTATGGAATGGGCGCCAAAA 664 705 3148 Antisense
GGGCGCCAAAAGTTTATCGGAGTTG 223 483 3162 Antisense
AAGGCGTTTTTTGCAATGTTCCCTG 303 161 3223 Antisense
GCAATGTTCCCTGGTGTAAGAAGCT 101 315 3235 Antisense
GAACGAGTTGCTGTGAATTATACGA 2 349 3370 Antisense
TCAAGGATCTGCTAGCGAGATATTT 577 629 3396 Antisense
Sequence Source Affymetrix Proprietary Database