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[188483_s_at]

Description F09F7.2 /REP_DB=WormBase Gene ID /WP=CE01236 /GEN=mlc-3 /TR=SW:P53014 /GB=AAA50701.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 03      6grp_high1_10_10 > 22      4grp_highest_8_8 > 56      4grp_high_8_8 > 35      6grp_highest_nonorm > 17      6grp_total > 22      4grp_total > 44      6grp_highest_sub > De      6grp_cgc > 51      6grp_high1_sub > De      6grp_total_sub > Hat      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5495
1 2 3 4 range
A 11383.5
(-2.1)
P 		14525
(3)
P 		10804.5
(-3)
P 		11163.8
(-2.4)
P 		3721
B 12104.9
(3)
P 		11120.4
(1.1)
P 		10880.8
(0.6)
P 		9029.8
(-3)
P 		3075
C 11134.6
(2.8)
P 		11174.9
(3)
P 		9908
(-3)
P 		10197.5
(-1.6)
P 		1267
avr 11541
(0.9) 		12273.4
(3) 		10531.1
(-1.9) 		10130.4
(-3) 		2143

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8391
1 2 3 4 5 6 range
A 12103.8
(2)
P 		13105.8
(3)
P 		12427
(2.3)
P 		12986
(2.9)
P 		9319.1
(-0.9)
P 		7235.2
(-3)
P 		5871
B 10320
(1.7)
P 		11605.4
(3)
P 		10218.6
(1.6)
P 		10301.4
(1.6)
P 		10944.6
(2.3)
P 		5847.8
(-3)
P 		5758
C 13589.2
(3)
P 		11054.5
(1.2)
P 		12494.6
(2.2)
P 		10535.9
(0.8)
P 		13633.1
(3)
P 		5241.7
(-3)
P 		8391
avr 12004.3
(3) 		11921.9
(2.9) 		11713.4
(2.7) 		11274.4
(2.3) 		11298.9
(2.3) 		6108.2
(-3) 		5896
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2511
1 2 3 4 range
A 4144.8
(3)
P 		3153
(0.6)
P 		2824.5
(-0.2)
P 		1634.2
(-3)
P 		2511
B 3860.1
(3)
P 		2746.5
(-0.5)
P 		2521.3
(-1.1)
P 		1924.3
(-3)
P 		1936
C 3685.9
(3)
P 		3212.9
(1.6)
P 		3453.2
(2.3)
P 		1719.5
(-3)
P 		1966
avr 3896.9
(3) 		3037.5
(0.6) 		2933
(0.3) 		1759.3
(-3) 		2138

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3282
1 2 3 4 5 6 range
A 2231.2
(-2)
P 		4661.1
(3)
P 		2706.3
(-1)
P 		3293.6
(0.2)
P 		2812.1
(-0.8)
P 		1761.5
(-3)
P 		2900
B 3590.8
(0.7)
P 		3863
(1.5)
P 		2481.4
(-2.2)
P 		2728.5
(-1.5)
P 		4446.6
(3)
P 		2180.6
(-3)
P 		2266
C 5036.9
(3)
P 		3373.1
(-0)
P 		3180.1
(-0.4)
P 		2118.8
(-2.3)
P 		4411.5
(1.9)
P 		1754.7
(-3)
P 		3282
avr 3619.6
(2) 		3965.7
(3) 		2789.3
(-0.4) 		2713.6
(-0.6) 		3890.1
(2.8) 		1898.9
(-3) 		2067
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188483_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5992
Sequence Type Exemplar sequence
Representative Public ID F09F7.2 NCBI
Target Description F09F7.2 /REP_DB=WormBase Gene ID /WP=CE01236 /GEN=mlc-3 /TR=SW:P53014 /GB=AAA50701.1 /SUBMIT=ST.LOUIS /CHR=3 /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_171128(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171128 NCBI Caenorhabditis elegans Myosin Light Chain family member (mlc-3) (mlc-3) mRNA, complete cds. 11/11 None
GENEFINDER00000025410 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:5557116:5566912:1 11/11 None
SNAP00000025400 ENSEMBL cdna:SNAP chromosome:CEL140:III:5565086:5566912:1 11/11 None
F09F7.2a ENSEMBL cdna:known chromosome:CEL140:III:5564983:5567338:1 gene:F09F7.2 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_171129 6/11 Cross Hyb Matching Probes None
F09F7.2b 6/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175768 2 1 NM_171128 173182_at (11), 188483_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:5565084-5566911(+) 100.0 100.0
Public Domain and Genome References
Ensembl F09F7.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_498192 F09F7.3 [Caenorhabditis elegans] gb|AAA50695.2| Hypothetical protein F09F7.3 [Caenorhabditis elegans] 0.0
blast CAE56370 Hypothetical protein CBG24045 [Caenorhabditis briggsae] 0.0
blast XP_531760 PREDICTED: similar to DNA-directed RNA polymerase III subunit 127.6 kDa polypeptide (RNA polymerase III subunit 2) (RPC2) [Canis familiaris] 0.0
blast NP_741145 Myosin Light Chain family member (mlc-3) [Caenorhabditis elegans] gb|AAA50701.1| Myosin light chain protein 3, isoform a [Caenorhabditis elegans] sp|P53014|MLE_CAEEL Myosin, essential light chain (Myosin light chain alkali) gb|AAA28112.1| alkali myosin light chain 8.0E-83
blast CAE56371 Hypothetical protein CBG24046 [Caenorhabditis briggsae] 9.0E-79
blast NP_741146 Myosin Light Chain family member (mlc-3) [Caenorhabditis elegans] gb|AAM22061.1| Myosin light chain protein 3, isoform b [Caenorhabditis elegans] 7.0E-38
Protein Domains
Database ID Description E-Value
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 0.025
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 0.13
Pfam IPR007644 EMBL-EBI RNA polymerase beta subunit 1.1E-63
Pfam IPR007642 EMBL-EBI RNA polymerase Rpb2, domain 2 1.2E-13
Pfam IPR007642 EMBL-EBI RNA polymerase Rpb2, domain 2 1.7E-10
Pfam IPR007645 EMBL-EBI RNA polymerase Rpb2, domain 3 7.2E-29
Pfam IPR007646 EMBL-EBI RNA polymerase Rpb2, domain 4 4.1E-27
Pfam IPR007647 EMBL-EBI RNA polymerase Rpb2, domain 5 2.4E-19
Pfam IPR007120 EMBL-EBI RNA polymerase Rpb2, domain 6 1.0E-126
Pfam IPR007641 EMBL-EBI RNA polymerase Rpb2, domain 7 5.5E-33
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 0.025
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 0.13
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000025410 2 4-21,28-50
Sequence
Target Sequence 
>C. ELEGANS:188483_S_AT
caaggagatcttcaacctctacgatgaggagcttgacggcaagatcgacggaacccaagt
cggagatgtcgcccgcgccgccggacttaagccaactcaggctatggtgacaaaggccgc
cggacaggagttcaagcgtaagggagagaagagacttacattcgaggagtggctcccgat
gtacgagcaactcgccaaggagaaggagcaaggaacctacgctgacttctacgagggact
caaggtgttcgacaaggaggagactggaaagatcttggccgctgagctcagacacatcct
cttggctctcggtgagagactttccgccgatgaggccgatgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAGGAGATCTTCAACCTCTACGAT 239 183 39 Antisense
GACGGCAAGATCGACGGAACCCAAG 104 375 73 Antisense
GGAACCCAAGTCGGAGATGTCGCCC 484 529 88 Antisense
CCGCCGGACTTAAGCCAACTCAGGC 213 1 116 Antisense
GACAAAGGCCGCCGGACAGGAGTTC 625 365 147 Antisense
GTGGCTCCCGATGTACGAGCAACTC 490 491 207 Antisense
GGAGCAAGGAACCTACGCTGACTTC 702 517 243 Antisense
TACGCTGACTTCTACGAGGGACTCA 100 649 256 Antisense
TGGAAAGATCTTGGCCGCTGAGCTC 525 547 303 Antisense
GGCTCTCGGTGAGAGACTTTCCGCC 238 539 342 Antisense
ACTTTCCGCCGATGAGGCCGATGAG 167 103 357 Antisense
Sequence Source Affymetrix Proprietary Database