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[181453_at]

Description C39E9.12 /REP_DB=WormBase Gene ID /WP=CE05395 /TR=Q18546 /GB=CAA94338.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 88      6grp_high1_10_10 > 88      4grp_highest_8_8 > 01      4grp_high_8_8 > 45      6grp_highest_nonorm > 94      6grp_total > 88      4grp_total > 50      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 257
1 2 3 4 range
A 322
(-2.4)
P 		536.8
(3)
P 		392.4
(-0.6)
P 		299.3
(-3)
P 		238
B 379.7
(-1.9)
P 		456.6
(1.2)
P 		500.7
(3)
P 		353
(-3)
P 		148
C 337.7
(-1)
P 		446.7
(2.8)
P 		451.7
(3)
P 		279.4
(-3)
P 		172
avr 346.5
(-1.7) 		480
(3) 		448.3
(1.9) 		310.6
(-3) 		169

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 841
1 2 3 4 5 6 range
A 353.8
(-2.2)
P 		292.3
(-2.7)
P 		251.9
(-3)
P 		304
(-2.6)
P 		650.9
(-0.1)
P 		1066.5
(3)
P 		815
B 322
(-2.1)
P 		225.2
(-3)
P 		281.8
(-2.5)
P 		377.9
(-1.6)
P 		632.6
(0.6)
P 		899.4
(3)
P 		674
C 331.9
(-2.4)
P 		261.5
(-3)
P 		276.9
(-2.9)
P 		263.2
(-3)
P 		791.5
(1.9)
P 		913.1
(3)
P 		652
avr 335.9
(-2.3) 		259.7
(-3) 		270.2
(-2.9) 		315
(-2.5) 		691.7
(0.7) 		959.7
(3) 		700
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 114
1 2 3 4 range
A 117.2
(3)
P 		116.5
(2.9)
P 		102.6
(1.8)
P 		43.8
(-3)
P 		73
B 121.1
(3)
P 		112.8
(1.9)
P 		116
(2.3)
P 		75.2
(-3)
P 		46
C 111.8
(0.5)
P 		128.4
(1.4)
P 		157.4
(3)
P 		47.1
(-3)
P 		110
avr 116.7
(2.3) 		119.2
(2.5) 		125.3
(3) 		55.4
(-3) 		70

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 283
1 2 3 4 5 6 range
A 65.2
(-2.7)
P 		104
(-1.6)
P 		54.9
(-3)
P 		77.1
(-2.3)
P 		196.4
(1.1)
P 		259.7
(3)
P 		205
B 112
(-2)
P 		75
(-2.9)
P 		68.4
(-3)
P 		100.1
(-2.3)
P 		257
(1.2)
P 		335.4
(3)
P 		267
C 123
(-1.3)
P 		79.8
(-2.4)
P 		70.5
(-2.6)
P 		52.9
(-3)
P 		256.1
(1.8)
P 		305.7
(3)
P 		253
avr 100.1
(-2.1) 		86.3
(-2.4) 		64.6
(-3) 		76.7
(-2.7) 		236.5
(1.4) 		300.3
(3) 		236
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 181453_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9539
Sequence Type Exemplar sequence
Representative Public ID C39E9.12 NCBI
Target Description C39E9.12 /REP_DB=WormBase Gene ID /WP=CE05395 /TR=Q18546 /GB=CAA94338.1 /SUBMIT=HINXTON /CHR=4 /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_070115(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070115 NCBI Caenorhabditis elegans C39E9.12 (C39E9.12) mRNA, complete cds. 11/11 None
SNAP00000026311 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13093981:13095349:1 11/11 None
GENEFINDER00000026318 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13093981:13096908:1 11/11 None
C39E9.12 ENSEMBL cdna:known chromosome:CEL140:IV:13093876:13095461:1 gene:C39E9.12 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
chrIV:13093881-13095355(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C39E9.12
Entrez Gene 178258 Entrez gene
SwissProt Q18546 EMBL-EBI
WormBase CE05395 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA94338 Hypothetical protein C39E9.12 [Caenorhabditis elegans] ref|NP_502516.1| C39E9.12 [Caenorhabditis elegans] 0.0
blast CAA94339 Hypothetical protein C39E9.13 [Caenorhabditis elegans] ref|NP_502517.1| RFC (DNA replication factor) family member (rfc-3) [Caenorhabditis elegans] 0.0
blast CAE58658 Hypothetical protein CBG01827 [Caenorhabditis briggsae] 1.0E-174
blast CAE58659 Hypothetical protein CBG01828 [Caenorhabditis briggsae] 1.0E-115
blast CAE58659 Hypothetical protein CBG01828 [Caenorhabditis briggsae] 1.0E-113
Protein Domains
Database ID Description E-Value
Pfam IPR003034 EMBL-EBI DNA-binding SAP 2.2E-10
Pfam IPR003034 EMBL-EBI DNA-binding SAP 2.2E-10
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502516.1 1 5-27
C39E9.12 1 5-27
Sequence
Target Sequence 
>C. ELEGANS:181453_AT
gacacgaattcatgaccggcgacgtcccagaagctatcaggagacttgctaccccgaaaa
gtgtgccaagacgtgacccagttgatagatcaactacaagatctgctgcgcgcaattggc
aagttcaggatcctgagaaaatgtccttccaattcggggataaatctgctgatgattttc
ccgctcttgtcagctcacgagctggctgctcatcgtcatctgctgccaccacctctacca
aaaagacaaagtccgttgcaagatctcatgtggacgtgaagaagctcaccaagtcacaaa
tcccgaaaccatgccgtttaacttctcgaaaaatcattcctgcaactgtccc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACACGAATTCATGACCGGCGACGT 557 367 731 Antisense
GCGACGTCCCAGAAGCTATCAGGAG 645 289 749 Antisense
AGCTATCAGGAGACTTGCTACCCCG 276 79 762 Antisense
TGCCAAGACGTGACCCAGTTGATAG 268 585 794 Antisense
ATCAACTACAAGATCTGCTGCGCGC 505 27 819 Antisense
TGCTGCGCGCAATTGGCAAGTTCAG 639 581 834 Antisense
GTCAGCTCACGAGCTGGCTGCTCAT 585 465 919 Antisense
AAGTCCGTTGCAAGATCTCATGTGG 302 159 979 Antisense
AGAAGCTCACCAAGTCACAAATCCC 163 75 1010 Antisense
GAAACCATGCCGTTTAACTTCTCGA 401 357 1035 Antisense
GAAAAATCATTCCTGCAACTGTCCC 6 357 1058 Antisense
Sequence Source Affymetrix Proprietary Database