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[188549_at]

Description C16A3.1 /REP_DB=WormBase Gene ID /WP=CE08187 /CHR=3 /FEA=Sanger Annotation /DEF=helicase (ST.LOUIS) TR:Q18039 protein_id:AAD31048.1
Cluster 6grp_highest_10_10 > 96      6grp_high1_10_10 > 69      4grp_high_8_8 > 16      6grp_highest_nonorm > 82      6grp_total > 69      4grp_total > 39      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 371
1 2 3 4 range
A 480.9
(3)
P 		351.6
(-0.1)
M 		228.2
(-3)
M 		310.9
(-1)
A 		253
B 598.8
(3)
P 		239.2
(-3)
P 		257
(-2.7)
P 		423.6
(0.1)
P 		360
C 490
(3)
P 		271.6
(-2.6)
P 		256.1
(-3)
P 		341.5
(-0.8)
P 		234
avr 523.2
(3) 		287.5
(-2.1) 		247.1
(-3) 		358.7
(-0.6) 		276

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 313
1 2 3 4 5 6 range
A 332.7
(-1.2)
P 		350
(-0.9)
P 		240
(-3)
P 		263.4
(-2.6)
P 		466.3
(1.3)
P 		553.1
(3)
P 		313
B 411.8
(0.3)
P 		366.8
(-0.8)
P 		278.9
(-3)
P 		334.3
(-1.6)
P 		365.7
(-0.8)
P 		519.2
(3)
P 		240
C 358
(-1.1)
P 		388.9
(-0.2)
P 		292.2
(-3)
P 		302.1
(-2.7)
P 		366.4
(-0.8)
P 		496.3
(3)
P 		204
avr 367.5
(-0.7) 		368.6
(-0.7) 		270.4
(-3) 		299.9
(-2.3) 		399.5
(0.1) 		522.9
(3) 		253
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 146
1 2 3 4 range
A 175.1
(3)
P 		76.3
(-1.6)
M 		59.7
(-2.3)
M 		45.5
(-3)
A 		130
B 191
(3)
P 		59.1
(-3)
P 		59.6
(-3)
P 		90.3
(-1.6)
P 		132
C 162.2
(3)
P 		78.1
(-1.8)
P 		89.3
(-1.2)
P 		57.6
(-3)
P 		105
avr 176.1
(3) 		71.2
(-2.6) 		69.5
(-2.7) 		64.5
(-3) 		112

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 141
1 2 3 4 5 6 range
A 61.3
(-2.4)
P 		124.5
(1.9)
P 		52.3
(-3)
P 		66.8
(-2)
P 		140.7
(3)
P 		134.7
(2.6)
P 		88
B 143.3
(0.6)
P 		122.1
(-0.4)
P 		67.7
(-3)
P 		88.5
(-2)
P 		148.6
(0.9)
P 		193.6
(3)
P 		126
C 132.7
(1.1)
P 		118.7
(0.3)
P 		74.4
(-2.2)
P 		60.8
(-3)
P 		118.6
(0.3)
P 		166.2
(3)
P 		105
avr 112.4
(-0.1) 		121.8
(0.4) 		64.8
(-3) 		72
(-2.6) 		136
(1.3) 		164.8
(3) 		100
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188549_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6162
Sequence Type Exemplar sequence
Representative Public ID C16A3.1 NCBI
Target Description C16A3.1 /REP_DB=WormBase Gene ID /WP=CE08187 /CHR=3 /FEA=Sanger Annotation /DEF=helicase (ST.LOUIS) TR:Q18039 protein_id:AAD31048.1
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_065999(11), NM_171165(11), NM_066000(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065999 NCBI Caenorhabditis elegans C16A3.1a (helicase) mRNA, complete cds. 11/11 None
NM_171165 NCBI Caenorhabditis elegans C16A3.1c (helicase) mRNA, complete cds. 11/11 None
NM_066000 NCBI Caenorhabditis elegans C16A3.1b (helicase) mRNA, complete cds. 11/11 None
SNAP00000030746 ENSEMBL cdna:SNAP chromosome:CEL140:III:6390886:6393612:1 11/11 None
GENEFINDER00000030797 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6390886:6393612:1 11/11 None
C16A3.1a.2 ENSEMBL cdna:known chromosome:CEL140:III:6390881:6393612:1 gene:C16A3.1 11/11 None
C16A3.1a.1 ENSEMBL cdna:known chromosome:CEL140:III:6390883:6393612:1 gene:C16A3.1 11/11 None
C16A3.1c ENSEMBL cdna:known chromosome:CEL140:III:6390886:6393777:1 gene:C16A3.1 11/11 None
C16A3.1b ENSEMBL cdna:known chromosome:CEL140:III:6390886:6393612:1 gene:C16A3.1 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:6390884-6393611(+) 100.0 100.0
Public Domain and Genome References
Ensembl C16A3.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK68177 Hypothetical protein C16A3.1a [Caenorhabditis elegans] ref|NP_498400.1| C16A3.1a [Caenorhabditis elegans] 0.0
blast AAM22028 Hypothetical protein C16A3.1b [Caenorhabditis elegans] ref|NP_498401.2| C16A3.1b [Caenorhabditis elegans] 0.0
blast AAM22029 Hypothetical protein C16A3.1c [Caenorhabditis elegans] ref|NP_741192.1| C16A3.1c [Caenorhabditis elegans] sp|Q8MNV7|SMAL1_CAEEL Putative SMARCAL1-like protein 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000330 EMBL-EBI SNF2 related domain 2.4E-20
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.5E-16
Pfam IPR000330 EMBL-EBI SNF2 related domain 2.4E-20
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.5E-16
Pfam IPR000330 EMBL-EBI SNF2 related domain 2.4E-20
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.5E-16
Pfam IPR000330 EMBL-EBI SNF2 related domain 2.4E-20
Pfam IPR001650 EMBL-EBI Helicase, C-terminal 1.5E-16
Sequence
Target Sequence 
>C. ELEGANS:188549_AT
aaactacttctatccagatgctccaccacggaaagtgctcatcttcgcacatcatcaaat
cgttcttgacactattcaagtggaagtgaacaaacgaaaacttggatcaattcgaatcga
tggaaagactccatcacatcgaagaacggctctttgtgactcattccagactgatgataa
cattcgtgtcgcggttctttcgatcactgcagcaggtgttggaatcactttgaccgccgc
atcggtcgtcgtgttcgctgaaattcacttcaatccaggatacctcgtgcaggccgagga
tcgggctcatcgagtcggacagaaggatagtgtcttcgtgcaatatttgatcgcaaagaa
aactgctgatgatgtcatgtggaatatggttcagcagaaattagatgtgttgggacaggt
cagcctgtcaagtgacacattccgtactgctgacaaaatgcatctccgtttcaatgatgc
cgcgcagcctggcatcgcagaatatctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAACTACTTCTATCCAGATGCTCCA 632 127 1431 Antisense
ATGCTCCACCACGGAAAGTGCTCAT 114 43 1448 Antisense
AGTGCTCATCTTCGCACATCATCAA 214 61 1464 Antisense
AAGAACGGCTCTTTGTGACTCATTC 290 153 1572 Antisense
TGATAACATTCGTGTCGCGGTTCTT 450 563 1605 Antisense
GTTCTTTCGATCACTGCAGCAGGTG 588 443 1624 Antisense
TCAATCCAGGATACCTCGTGCAGGC 294 633 1700 Antisense
ATCGGGCTCATCGAGTCGGACAGAA 396 35 1730 Antisense
TGACACATTCCGTACTGCTGACAAA 643 571 1863 Antisense
GCTGACAAAATGCATCTCCGTTTCA 12 297 1879 Antisense
GCAGCCTGGCATCGCAGAATATCTC 304 315 1914 Antisense
Sequence Source Affymetrix Proprietary Database