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[180644_at]

Description C42D4.1 /REP_DB=WormBase Gene ID /WP=CE04189 /TR=Q18577 /GB=AAA83352.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 46      6grp_high1_10_10 > 63      4grp_highest_8_8 > 41      4grp_high_8_8 > 50      6grp_highest_nonorm > 35      6grp_total > 63      4grp_total > 53      6grp_high1_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2670
1 2 3 4 range
A 3327.8
(2.8)
P 		3389.8
(3)
P 		2607.8
(0.4)
P 		1552.4
(-3)
P 		1837
B 4013.8
(3)
P 		2689
(-0.1)
P 		2538.8
(-0.5)
P 		1465.2
(-3)
P 		2549
C 3600.8
(3)
P 		2611.8
(0.4)
P 		2839.9
(1)
P 		1343.4
(-3)
P 		2257
avr 3647.5
(3) 		2896.9
(0.9) 		2662.2
(0.3) 		1453.7
(-3) 		2194

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2389
1 2 3 4 5 6 range
A 2522.4
(-2.7)
P 		3025.7
(-1)
P 		4215.9
(3)
P 		3720.1
(1.3)
P 		2432.2
(-3)
P 		3037
(-1)
P 		1784
B 2538.7
(-2.7)
P 		2910.1
(-1.7)
P 		4531.8
(3)
P 		3111.3
(-1.1)
P 		2443.9
(-3)
P 		3274.6
(-0.6)
P 		2088
C 2649.3
(-1.4)
P 		3273.1
(0.6)
P 		4001.9
(3)
P 		3343.1
(0.9)
P 		2142.7
(-3)
P 		3192.2
(0.4)
P 		1859
avr 2570.1
(-2.3) 		3069.6
(-0.7) 		4249.9
(3) 		3391.5
(0.3) 		2339.6
(-3) 		3167.9
(-0.4) 		1910
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1054
1 2 3 4 range
A 1211.7
(3)
P 		735.8
(0.1)
P 		681.7
(-0.2)
P 		227.2
(-3)
P 		985
B 1280
(3)
P 		664.1
(-0.8)
P 		588.3
(-1.3)
P 		312.2
(-3)
P 		968
C 1192
(3)
P 		750.9
(0.3)
P 		989.8
(1.7)
P 		226.5
(-3)
P 		966
avr 1227.9
(3) 		716.9
(-0.2) 		753.3
(0.1) 		255.3
(-3) 		973

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 756
1 2 3 4 5 6 range
A 465
(-3)
P 		1076.1
(3)
P 		918.1
(1.4)
P 		943.5
(1.7)
P 		733.9
(-0.4)
P 		739.4
(-0.3)
P 		611
B 883.3
(-2.1)
P 		968.6
(-0.8)
P 		1100.5
(1.2)
P 		824.1
(-3)
P 		992.9
(-0.4)
P 		1221.1
(3)
P 		397
C 982
(1.7)
P 		998.7
(1.9)
P 		1018.6
(2.2)
P 		672.3
(-3)
P 		693.3
(-2.7)
P 		1068.6
(3)
P 		396
avr 776.8
(-3) 		1014.5
(3) 		1012.4
(2.9) 		813.3
(-2.1) 		806.7
(-2.2) 		1009.7
(2.9) 		238
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180644_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8984
Sequence Type Exemplar sequence
Representative Public ID C42D4.1 NCBI
Target Description C42D4.1 /REP_DB=WormBase Gene ID /WP=CE04189 /TR=Q18577 /GB=AAA83352.1 /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_068735(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068735 NCBI Caenorhabditis elegans C42D4.1 (C42D4.1) mRNA, complete cds. 11/11 None
SNAP00000029588 ENSEMBL cdna:SNAP chromosome:CEL140:IV:7189271:7190211:1 11/11 None
GENEFINDER00000029600 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:7189271:7190211:1 11/11 None
C42D4.1 ENSEMBL cdna:known chromosome:CEL140:IV:7189271:7190303:1 gene:C42D4.1 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
chrIV:7189276-7190217(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C42D4.1
Entrez Gene 183403 Entrez gene
SwissProt Q18577 EMBL-EBI
WormBase CE04189 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_501136 C42D4.1 [Caenorhabditis elegans] gb|AAA83352.1| Hypothetical protein C42D4.1 [Caenorhabditis elegans] 3.0E-92
blast CAE61832 Hypothetical protein CBG05802 [Caenorhabditis briggsae] 4.0E-63
Protein Domains
Database ID Description E-Value
Pfam IPR003677 EMBL-EBI Protein of unknown function, DUF 148 4.7E-46
Sequence
Target Sequence 
>C. ELEGANS:180644_AT
gagccaagacgcaaaaactgcctattttggaatcaagttcaatccagaattgacaaaagc
tgagaagactcgaatgttgaaggaatgggctgatcagtacgatgttgaggatgatatgca
aaagttcttggacgctaagaaagcagattgtgataagaagaaacaagagcgcaaggacaa
ctatgaacgccttggagatcttattgaaaaagccgatgaaattcttgatgatcaagagaa
cacctggaatggagccaacgaaaagcttgaggcattggtcaaggatgagaatcgtgatgt
tatgaaggcattccaatcattctatccatttgttggaagagacagtgaaggaccaagaca
tggtcatgggcatggacacggacaccgattccatcatggaagacgtttcggtagaaatat
tggtggaggagctgctccaagatacaatggaggaggaatcggaagcggaatctctattgg
agagaacccaagacatcataatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGCCAAGACGCAAAAACTGCCTAT 27 385 159 Antisense
GGAATGGGCTGATCAGTACGATGTT 150 533 240 Antisense
AGGACAACTATGAACGCCTTGGAGA 507 53 332 Antisense
GAACGCCTTGGAGATCTTATTGAAA 449 345 343 Antisense
GAACACCTGGAATGGAGCCAACGAA 197 347 396 Antisense
AAGGCATTCCAATCATTCTATCCAT 372 161 463 Antisense
TCATGGGCATGGACACGGACACCGA 97 577 522 Antisense
CACGGACACCGATTCCATCATGGAA 516 199 535 Antisense
GAGGAGCTGCTCCAAGATACAATGG 134 405 584 Antisense
GAATCGGAAGCGGAATCTCTATTGG 704 327 614 Antisense
GGAGAGAACCCAAGACATCATAATG 171 519 637 Antisense
Sequence Source Affymetrix Proprietary Database