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[189853_s_at]

Description M01E5.5A /REP_DB=WormBase Gene ID /WP=CE12282 /TR=O17966 /GB=CAB07640.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=DNA topoisomerase I
Cluster 6grp_highest_10_10 > 60      6grp_high1_10_10 > 07      4grp_high_8_8 > 43      6grp_highest_nonorm > 80      6grp_total > 07      4grp_total > 53      6grp_highest_sub > De      6grp_cgc > 11      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 135
1 2 3 4 range
A 202.8
(3)
P 		166.6
(1.4)
M 		167.9
(1.5)
P 		67.7
(-3)
A 		135
B 167.6
(3)
P 		119.7
(-2.8)
A 		118.2
(-3)
P 		139.2
(-0.4)
P 		49
C 162.1
(0.6)
P 		188
(3)
P 		154.7
(-0.1)
P 		122.7
(-3)
P 		65
avr 177.5
(3) 		158.1
(1.3) 		146.9
(0.3) 		109.9
(-3) 		68

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 374
1 2 3 4 5 6 range
A 119.6
(-2.2)
P 		262.4
(3)
P 		98.7
(-3)
P 		171.9
(-0.3)
P 		135.5
(-1.7)
P 		138.5
(-1.5)
P 		164
B 145.9
(1.4)
P 		151.8
(2.6)
P 		134.5
(-0.9)
P 		146.7
(1.6)
P 		124.2
(-3)
P 		153.8
(3)
P 		30
C 472.6
(3)
P 		143.6
(-2.5)
P 		229.5
(-1)
P 		207.6
(-1.4)
P 		161.1
(-2.2)
P 		112.3
(-3)
P 		360
avr 246
(3) 		185.9
(-0.2) 		154.2
(-2) 		175.4
(-0.8) 		140.3
(-2.7) 		134.9
(-3) 		111
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 64
1 2 3 4 range
A 73.8
(3)
P 		36.2
(-0.5)
M 		43.9
(0.2)
P 		9.9
(-3)
A 		64
B 53.5
(3)
P 		29.6
(-2.5)
A 		27.4
(-3)
P 		29.7
(-2.5)
P 		26
C 53.6
(2.9)
P 		54
(3)
P 		53.9
(3)
P 		20.7
(-3)
P 		33
avr 60.3
(3) 		39.9
(-0) 		41.7
(0.2) 		20.1
(-3) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 154
1 2 3 4 5 6 range
A 22
(-3)
P 		93.3
(3)
P 		21.5
(-3)
P 		43.6
(-1.2)
P 		40.9
(-1.4)
P 		33.7
(-2)
P 		72
B 50.8
(1.4)
P 		50.5
(1.3)
P 		32.7
(-3)
P 		38.9
(-1.5)
P 		50.5
(1.3)
P 		57.3
(3)
P 		25
C 175.2
(3)
P 		43.8
(-2.7)
P 		58.4
(-2.1)
P 		41.8
(-2.8)
P 		52.1
(-2.4)
P 		37.6
(-3)
P 		138
avr 82.7
(3) 		62.5
(0.3) 		37.5
(-3) 		41.4
(-2.5) 		47.8
(-1.6) 		42.9
(-2.3) 		45
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189853_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1202
Sequence Type Exemplar sequence
Representative Public ID M01E5.5A NCBI
Target Description M01E5.5A /REP_DB=WormBase Gene ID /WP=CE12282 /TR=O17966 /GB=CAB07640.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=DNA topoisomerase I
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_060936(11), NM_001026407(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060936 NCBI Caenorhabditis elegans TOPoisomerase family member (top-1) (top-1) mRNA, complete cds. 11/11 A 
NM_001026407 NCBI Caenorhabditis elegans TOPoisomerase family member (top-1) (top-1) mRNA, complete cds. 11/11 None
SNAP00000016100 ENSEMBL cdna:SNAP chromosome:CEL140:I:13300745:13304986:1 11/11 None
GENEFINDER00000016131 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:13300745:13304986:1 11/11 None
M01E5.5a ENSEMBL cdna:known chromosome:CEL140:I:13300633:13305672:1 gene:M01E5.5 11/11 A 
M01E5.5b ENSEMBL cdna:known chromosome:CEL140:I:13300633:13304986:1 gene:M01E5.5 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
chrI:13300675-13304917(+) 91.33 100.0
Public Domain and Genome References
Ensembl M01E5.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA65537 DNA topoisomerase; DNA topoisomerase I [Caenorhabditis elegans] 0.0
blast CAB07639 Hypothetical protein M01E5.5b [Caenorhabditis elegans] ref|NP_001021578.1| TOPoisomerase family member (top-1) [Caenorhabditis elegans] 0.0
blast CAB07640 Hypothetical protein M01E5.5a [Caenorhabditis elegans] ref|NP_493337.1| TOPoisomerase family member (top-1) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
scop a.2.8.Eukaryotic DNA topoisomerase I, dispensable insert domain All alpha proteins; Long alpha-hairpin; Eukaryotic DNA topoisomerase I, dispensable insert domain; Eukaryotic DNA topoisomerase I, dispensable insert domain 0.439999997615814
scop a.2.8.Eukaryotic DNA topoisomerase I, dispensable insert domain All alpha proteins; Long alpha-hairpin; Eukaryotic DNA topoisomerase I, dispensable insert domain; Eukaryotic DNA topoisomerase I, dispensable insert domain 0.600000023841858
scop a.2.8.Eukaryotic DNA topoisomerase I, dispensable insert domain All alpha proteins; Long alpha-hairpin; Eukaryotic DNA topoisomerase I, dispensable insert domain; Eukaryotic DNA topoisomerase I, dispensable insert domain 9.5
Pfam IPR008336 EMBL-EBI Eukaryotic DNA topoisomerase I, DNA binding 1.0E-126
Pfam IPR001631 EMBL-EBI Eukaryotic-like DNA topoisomerase I 1.0E-126
Pfam IPR008336 EMBL-EBI Eukaryotic DNA topoisomerase I, DNA binding 1.0E-126
Pfam IPR001631 EMBL-EBI Eukaryotic-like DNA topoisomerase I 1.0E-126
Pfam IPR008336 EMBL-EBI Eukaryotic DNA topoisomerase I, DNA binding 1.0E-126
Pfam IPR001631 EMBL-EBI Eukaryotic-like DNA topoisomerase I 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000016131 1 206-223
Sequence
Target Sequence 
>C. ELEGANS:189853_S_AT
tgatcttttcgatcgtctcgacactgcaacactcaatgatcatttgagaagtttgatgga
tggtttgacggtaaaagtgttccgtacctataatgcttcgatcacacttcaagagcaact
gataaagctgacgaatcccaaggacaatgtggcggcaaaaattctgtcatacaatcgtgc
taatcggcaggttgcgatcctttgtaaccatcaacgtgccgtttcgaagggattcgatga
gtcgatgcaaaagttggagcaaaagatcaaggacaaaaagaaggaggtgaaggaagccga
agccgcgctgaagtctgctcgcggagcagaaaaggagaaggcccagaagaagtacgacag
actgaaggagcagttgaaaaagttgaaaatctcaagaactgataaggatgagaacaaaca
gatcgcgttgggtacttcgaaactcaattatattgatcctcggatcactgtcgcctggtg
caagaagtttgaggttccgttggagaaggtcttcaccaaaactcaccgtgagaaattccg
ttgggccatcgacatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGATCTTTTCGATCGTCTCGACACT 213 565 1845 Antisense
TCTCGACACTGCAACACTCAATGAT 566 609 1860 Antisense
GTGTTCCGTACCTATAATGCTTCGA 119 485 1921 Antisense
AATGCTTCGATCACACTTCAAGAGC 695 165 1936 Antisense
GATCCTTTGTAACCATCAACGTGCC 525 415 2040 Antisense
CAACGTGCCGTTTCGAAGGGATTCG 481 157 2056 Antisense
CCGCGCTGAAGTCTGCTCGCGGAGC 136 263 2147 Antisense
GATCGCGTTGGGTACTTCGAAACTC 194 417 2265 Antisense
ATCACTGTCGCCTGGTGCAAGAAGT 488 27 2308 Antisense
GAGAAGGTCTTCACCAAAACTCACC 130 391 2347 Antisense
GAAATTCCGTTGGGCCATCGACATG 664 361 2376 Antisense
Sequence Source Affymetrix Proprietary Database