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[185878_at]

Description Y46H3C.4 /REP_DB=WormBase Gene ID /WP=CE24315 /TR=Q9N4W3 /GB=AAF60626.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 09      4grp_total > 56      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 22
1 2 3 4 range
A 3.4
(-2.8)
A 		22.8
(2.4)
A 		25
(3)
A 		2.8
(-3)
A 		22
B 20.4
(3)
A 		5.8
(-2.9)
A 		5.6
(-3)
A 		15.9
(1.2)
A 		15
C 3
(-3)
A 		4.1
(-1.4)
A 		7.2
(3)
A 		4.3
(-1.1)
A 		4
avr 8.9
(-1.5) 		10.9
(0.9) 		12.6
(3) 		7.7
(-3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 29
1 2 3 4 5 6 range
A 2.3
(-3)
A 		2.5
(-3)
A 		30.1
(3)
A 		12.8
(-0.7)
A 		21.8
(1.2)
A 		8.4
(-1.7)
A 		28
B 23.9
(3)
A 		2.6
(-3)
A 		3.3
(-2.8)
A 		4.3
(-2.5)
A 		3.3
(-2.8)
A 		22.9
(2.7)
A 		21
C 13.9
(3)
A 		4.5
(-1.4)
A 		3
(-2.1)
A 		2.4
(-2.4)
A 		11.3
(1.8)
A 		1.2
(-3)
A 		13
avr 13.4
(3) 		3.2
(-3) 		12.1
(2.2) 		6.5
(-1.1) 		12.1
(2.2) 		10.8
(1.5) 		10
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6
1 2 3 4 range
A 1.2
(-2.2)
A 		5
(1.5)
A 		6.5
(3)
A 		0.4
(-3)
A 		6
B 6.5
(3)
A 		1.4
(-2.9)
A 		1.3
(-3)
A 		3.4
(-0.6)
A 		5
C 1
(-2)
A 		1.2
(-1.3)
A 		2.5
(3)
A 		0.7
(-3)
A 		2
avr 2.9
(1.4) 		2.5
(0.2) 		3.4
(3) 		1.5
(-3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8
1 2 3 4 5 6 range
A 0.4
(-3)
A 		0.9
(-2.5)
A 		6.6
(3)
A 		3.2
(-0.3)
A 		6.6
(3)
A 		2
(-1.5)
A 		6
B 8.3
(2.8)
A 		0.9
(-2.9)
A 		0.8
(-3)
A 		1.1
(-2.8)
A 		1.4
(-2.5)
A 		8.5
(3)
A 		8
C 5.2
(3)
A 		1.4
(-1.8)
A 		0.8
(-2.5)
A 		0.5
(-2.9)
A 		3.7
(1.1)
A 		0.4
(-3)
A 		5
avr 4.6
(3) 		1.1
(-3) 		2.7
(-0.3) 		1.6
(-2.1) 		3.9
(1.8) 		3.6
(1.3) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185878_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14802
Sequence Type Exemplar sequence
Representative Public ID Y46H3C.4 NCBI
Target Description Y46H3C.4 /REP_DB=WormBase Gene ID /WP=CE24315 /TR=Q9N4W3 /GB=AAF60626.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=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_071082(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071082 NCBI Caenorhabditis elegans Y46H3C.4 (Y46H3C.4) mRNA, complete cds. 11/11 None
SNAP00000038918 ENSEMBL cdna:SNAP chromosome:CEL140:V:1688253:1689514:1 11/11 None
GENEFINDER00000038929 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1687324:1689789:1 11/11 None
Y46H3C.4 ENSEMBL cdna:known chromosome:CEL140:V:1687324:1689641:1 gene:Y46H3C.4 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
chrV:1687323-1689641(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y46H3C.4
Entrez Gene 189967 Entrez gene
SwissProt Q9N4W3 EMBL-EBI
WormBase CE24315 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6259 DNA metabolism inferred from electronic annotation QuickGO AmiGO
6265 DNA topological change inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3918 DNA topoisomerase (ATP-hydrolyzing) activity inferred from electronic annotation QuickGO AmiGO
5524 ATP binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF60626 Hypothetical protein Y46H3C.4 [Caenorhabditis elegans] ref|NP_503483.1| Y46H3C.4 [Caenorhabditis elegans] 0.0
blast CAA94177 Hypothetical protein K12D12.1 [Caenorhabditis elegans] emb|CAA88867.1| Hypothetical protein K12D12.1 [Caenorhabditis elegans] ref|NP_496536.1| K12D12.1 [Caenorhabditis elegans] sp|Q23670|TOP2_CAEEL Probable DNA topoisomerase 2 (DNA topoisomerase II) 0.0
blast CAE59389 Hypothetical protein CBG02746 [Caenorhabditis briggsae] 0.0
blast AAF60626 Hypothetical protein Y46H3C.4 [Caenorhabditis elegans] ref|NP_503483.1| Y46H3C.4 [Caenorhabditis elegans] 1.0E-169
blast CAA94177 Hypothetical protein K12D12.1 [Caenorhabditis elegans] emb|CAA88867.1| Hypothetical protein K12D12.1 [Caenorhabditis elegans] ref|NP_496536.1| K12D12.1 [Caenorhabditis elegans] sp|Q23670|TOP2_CAEEL Probable DNA topoisomerase 2 (DNA topoisomerase II) 1.0E-138
blast CAA94177 Hypothetical protein K12D12.1 [Caenorhabditis elegans] emb|CAA88867.1| Hypothetical protein K12D12.1 [Caenorhabditis elegans] ref|NP_496536.1| K12D12.1 [Caenorhabditis elegans] sp|Q23670|TOP2_CAEEL Probable DNA topoisomerase 2 (DNA topoisomerase II) 1.0E-135
blast CAE59389 Hypothetical protein CBG02746 [Caenorhabditis briggsae] 1.0E-124
Protein Domains
Database ID Description E-Value
Pfam IPR002205 EMBL-EBI DNA gyrase/topoisomerase IV, subunit A 8.2E-28
Pfam IPR002205 EMBL-EBI DNA gyrase/topoisomerase IV, subunit A 2.6E-29
Pfam IPR002205 EMBL-EBI DNA gyrase/topoisomerase IV, subunit A 1.4E-20
Pfam IPR002205 EMBL-EBI DNA gyrase/topoisomerase IV, subunit A 1.3E-23
Pfam IPR002205 EMBL-EBI DNA gyrase/topoisomerase IV, subunit A 2.1E-32
Pfam IPR002205 EMBL-EBI DNA gyrase/topoisomerase IV, subunit A 1.6E-27
Pfam IPR002205 EMBL-EBI DNA gyrase/topoisomerase IV, subunit A 1.3E-23
Sequence
Target Sequence 
>C. ELEGANS:185878_AT
gacaacttcctttccgagttggacaagcaagaggctcgcgagaggggtgatcaagatgct
atgctcgagaatgccgtcaagaagcttgctgcagacgcaaagagcggacgtggatccacg
aagaatgtgtgcccggaagtcctcccatccaaggacggacatcgtatcgagccgcggttt
gatgccgcaaccaaggcaaagtatgaaaagatgacgcagccaaagcgggaacgcgtcaag
aaagagccaaagaagctggcgtggcaagccgattgtgacgacgatgttggcgtcacttct
gatgaagaagtcataagaaagccaaagccacgtgcagaaagaagagctgcaaaaaagcca
gctgtggaggctccagcaaagaaggctgagccgaagaagaagaagaacaacaagctctac
gacatgtctggcggcgagagtgctgatgacgtcggcgagaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACAACTTCCTTTCCGAGTTGGACA 629 363 1366 Antisense
GAATGCCGTCAAGAAGCTTGCTGCA 193 331 1434 Antisense
GGATCCACGAAGAATGTGTGCCCGG 674 511 1477 Antisense
AGTCCTCCCATCCAAGGACGGACAT 253 61 1503 Antisense
AGGACGGACATCGTATCGAGCCGCG 490 55 1517 Antisense
ATCGAGCCGCGGTTTGATGCCGCAA 152 35 1531 Antisense
GAAGCTGGCGTGGCAAGCCGATTGT 389 343 1617 Antisense
AAAAGCCAGCTGTGGAGGCTCCAGC 598 131 1718 Antisense
CAAGCTCTACGACATGTCTGGCGGC 532 185 1776 Antisense
ATGTCTGGCGGCGAGAGTGCTGATG 463 47 1789 Antisense
GAGTGCTGATGACGTCGGCGAGAAA 544 399 1803 Antisense
Sequence Source Affymetrix Proprietary Database