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[180540_at]

Description C42D4.3 /REP_DB=WormBase Gene ID /WP=CE04191 /TR=Q18572 /GB=AAA83347.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 28      4grp_highest_8_8 > 10      4grp_high_8_8 > 55      6grp_highest_nonorm > 03      6grp_total > 18      4grp_total > 56      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10513
1 2 3 4 range
A 257.1
(-2.9)
P 		5368.2
(0.7)
P 		8655.5
(3)
P 		150.5
(-3)
P 		8505
B 332.2
(-2.9)
P 		6638.8
(0.7)
P 		10663.2
(3)
P 		183
(-3)
P 		10480
C 236.5
(-3)
P 		6251
(1.6)
P 		8148.8
(3)
P 		201.9
(-3)
P 		7947
avr 275.3
(-2.9) 		6086
(0.9) 		9155.8
(3) 		178.5
(-3) 		8977

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4238
1 2 3 4 5 6 range
A 6050.5
(3)
P 		2271.8
(-2.9)
P 		3197.9
(-1.4)
P 		2201.2
(-3)
P 		2468.5
(-2.6)
P 		2811.6
(-2)
P 		3849
B 4464.8
(3)
P 		1812.8
(-3)
P 		2850
(-0.7)
P 		2146.2
(-2.2)
P 		2597.5
(-1.2)
P 		2495.9
(-1.5)
P 		2652
C 4895
(3)
P 		2078.5
(-3)
P 		3118.3
(-0.8)
P 		2231.1
(-2.7)
P 		2536.4
(-2)
P 		2632.6
(-1.8)
P 		2817
avr 5136.8
(3) 		2054.4
(-3) 		3055.4
(-1.1) 		2192.8
(-2.7) 		2534.1
(-2.1) 		2646.7
(-1.8) 		3082
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2818
1 2 3 4 range
A 93.6
(-2.8)
P 		1165.3
(0.1)
P 		2262.7
(3)
P 		22
(-3)
P 		2241
B 105.9
(-2.8)
P 		1639.6
(0.9)
P 		2470.9
(3)
P 		39
(-3)
P 		2432
C 78.3
(-2.9)
P 		1797.2
(0.8)
P 		2840.1
(3)
P 		34
(-3)
P 		2806
avr 92.6
(-2.9) 		1534
(0.6) 		2524.6
(3) 		31.7
(-3) 		2493

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1366
1 2 3 4 5 6 range
A 1115.4
(3)
P 		808
(-0.3)
P 		696.4
(-1.5)
P 		558.3
(-3)
P 		744.9
(-1)
P 		684.5
(-1.6)
P 		557
B 1553.5
(3)
P 		603.4
(-2.8)
P 		692.1
(-2.2)
P 		568.5
(-3)
P 		1055.3
(-0)
P 		930.7
(-0.8)
P 		985
C 1814.4
(3)
P 		634.2
(-2.2)
P 		793.7
(-1.5)
P 		448.7
(-3)
P 		820.7
(-1.4)
P 		881.3
(-1.1)
P 		1366
avr 1494.4
(3) 		681.9
(-2) 		727.4
(-1.7) 		525.2
(-3) 		873.6
(-0.8) 		832.2
(-1.1) 		969
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180540_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10223
Sequence Type Exemplar sequence
Representative Public ID C42D4.3 NCBI
Target Description C42D4.3 /REP_DB=WormBase Gene ID /WP=CE04191 /TR=Q18572 /GB=AAA83347.1 /SUBMIT=ST.LOUIS /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_068731(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068731 NCBI Caenorhabditis elegans C42D4.3 (C42D4.3) mRNA, complete cds. 11/11 None
SNAP00000029584 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7179245:7180314:1 11/11 None
GENEFINDER00000029596 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7179245:7180314:1 11/11 None
C42D4.3 ENSEMBL cdna:known chromosome:CEL140:IV:7179223:7180368:1 gene:C42D4.3 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:7179250-7180320(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C42D4.3
Entrez Gene 177492 Entrez gene
SwissProt Q18572 EMBL-EBI
WormBase CE04191 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_501132 C42D4.3 [Caenorhabditis elegans] gb|AAA83347.1| Hypothetical protein C42D4.3 [Caenorhabditis elegans] 1.0E-126
blast CAE61827 Hypothetical protein CBG05797 [Caenorhabditis briggsae] 1.0E-104
blast CAE69706 Hypothetical protein CBG15974 [Caenorhabditis briggsae] 1.0E-70
Protein Domains
Database ID Description E-Value
Pfam IPR002602 EMBL-EBI Protein of unknown function DB 2.5E-62
Sequence
Target Sequence 
>C. ELEGANS:180540_AT
gtgctgtgaagatcgtaacctgccagactcttgcctctcaaaatgctcttaccgttcata
caccaaatcagctcttcaatcaatgtacttcaagcaagactcgtgcccaatgcaagcagc
cgctgacattcaattctgtgctgctcaaggaaaagatcacaccgcgtgctgtgctagaaa
tgcagttggaactacattagctggtaataagtgcttcaccttctgtgaccaacgtccagg
aaacgtcactcaacttgatatgagctacttggcttgctatgaccgtttcgagaacatgaa
agcctgtttctaccagaaggcttctgaagcttccgatccaatagtctcattcagcaatga
tcgtgacaacaacagagaatttgcagttgacactgaaaccgccgaattccgccgtccatc
tcaagagcacttcagagccccaacttctccacaactcccacaaaacccactttttgctgt
cca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGCTGTGAAGATCGTAACCTGCCA 704 475 267 Antisense
AAAATGCTCTTACCGTTCATACACC 201 133 306 Antisense
TACCGTTCATACACCAAATCAGCTC 217 649 316 Antisense
ATCAGCTCTTCAATCAATGTACTTC 189 29 333 Antisense
AGCCGCTGACATTCAATTCTGTGCT 490 83 384 Antisense
ATCACACCGCGTGCTGTGCTAGAAA 2 29 422 Antisense
ATAAGTGCTTCACCTTCTGTGACCA 503 25 473 Antisense
TACTTGGCTTGCTATGACCGTTTCG 283 643 532 Antisense
AAGCTTCCGATCCAATAGTCTCATT 639 149 593 Antisense
ATCTCAAGAGCACTTCAGAGCCCCA 698 31 684 Antisense
CACAAAACCCACTTTTTGCTGTCCA 148 195 725 Antisense
Sequence Source Affymetrix Proprietary Database