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[180685_at]

Description C54E4.2 /REP_DB=WormBase Gene ID /WP=CE20611 /TR=O44466 /GB=AAK29794.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 07      6grp_high1_10_10 > 70      4grp_highest_8_8 > 08      4grp_high_8_8 > 52      6grp_highest_nonorm > 35      6grp_total > 71      4grp_total > 59      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3954
1 2 3 4 range
A 2477.9
(0.7)
P 		3790
(3)
P 		3563.6
(2.6)
P 		380.9
(-3)
P 		3409
B 2547.5
(0.3)
P 		4294.6
(3)
P 		3423.1
(1.7)
P 		367.8
(-3)
P 		3927
C 2402.8
(0.7)
P 		3674.8
(3)
P 		3521.8
(2.7)
P 		341
(-3)
P 		3334
avr 2476.1
(0.6) 		3919.8
(3) 		3502.8
(2.3) 		363.2
(-3) 		3557

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3232
1 2 3 4 5 6 range
A 3051.5
(1.3)
P 		3434.5
(2.3)
P 		2954.6
(1.1)
P 		3727.1
(3)
P 		2555.5
(0)
P 		1348.1
(-3)
P 		2379
B 2214.7
(-0.3)
P 		3182.3
(2.4)
P 		3262.9
(2.6)
P 		3342.9
(2.8)
P 		3399.9
(3)
P 		1261.6
(-3)
P 		2138
C 2558.8
(-0.8)
P 		3302.2
(0.7)
P 		3233.9
(0.5)
P 		4493.7
(3)
P 		3137.6
(0.3)
P 		1428.3
(-3)
P 		3065
avr 2608.3
(0) 		3306.3
(1.7) 		3150.5
(1.3) 		3854.6
(3) 		3031
(1) 		1346
(-3) 		2509
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1172
1 2 3 4 range
A 902.2
(2.8)
P 		822.7
(2.3)
P 		931.6
(3)
P 		55.8
(-3)
P 		876
B 812.4
(1.5)
P 		1060.7
(3)
P 		793.2
(1.4)
P 		78.4
(-3)
P 		982
C 795.4
(0.8)
P 		1056.5
(2.1)
P 		1227.5
(3)
P 		57.5
(-3)
P 		1170
avr 836.7
(2) 		980
(3) 		984.1
(3) 		63.9
(-3) 		920

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1053
1 2 3 4 5 6 range
A 562.5
(-1.4)
P 		1221.5
(3)
P 		643.5
(-0.9)
P 		945.3
(1.1)
P 		771.1
(-0)
P 		328.2
(-3)
P 		893
B 770.6
(-1)
P 		1059.2
(0.9)
P 		792.3
(-0.9)
P 		885.4
(-0.3)
P 		1381.3
(3)
P 		470.4
(-3)
P 		911
C 948.4
(2.3)
P 		1007.6
(2.9)
P 		823.1
(0.9)
P 		903.7
(1.8)
P 		1015.3
(3)
P 		478.1
(-3)
P 		537
avr 760.5
(-0) 		1096.1
(3) 		753
(-0.1) 		911.5
(1.3) 		1055.9
(2.6) 		425.6
(-3) 		671
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180685_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10676
Sequence Type Exemplar sequence
Representative Public ID C54E4.2 NCBI
Target Description C54E4.2 /REP_DB=WormBase Gene ID /WP=CE20611 /TR=O44466 /GB=AAK29794.1 /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_001027927(11), NM_001027928(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027927 NCBI Caenorhabditis elegans C54E4.2a (C54E4.2) mRNA, complete cds. 11/11 None
NM_001027928 NCBI Caenorhabditis elegans C54E4.2b (C54E4.2) mRNA, complete cds. 11/11 None
C54E4.2a.2 ENSEMBL cdna:known chromosome:CEL140:IV:2136954:2146319:1 gene:C54E4.2 11/11 None
C54E4.2a.1 ENSEMBL cdna:known chromosome:CEL140:IV:2136956:2146319:1 gene:C54E4.2 11/11 None
C54E4.2b ENSEMBL cdna:known chromosome:CEL140:IV:2136961:2146396:1 gene:C54E4.2 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000038604 4/11 Cross Hyb Matching Probes None
GENEFINDER00000038610 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:2136966-2146325(+) 100.0 100.0
Public Domain and Genome References
Ensembl C54E4.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAO61425 Hypothetical protein C54E4.2b [Caenorhabditis elegans] ref|NP_001023099.1| C54E4.2b [Caenorhabditis elegans] 1.0E-141
blast AAK29794 Hypothetical protein C54E4.2a [Caenorhabditis elegans] ref|NP_001023098.1| C54E4.2a [Caenorhabditis elegans] 1.0E-137
blast AAO61425 Hypothetical protein C54E4.2b [Caenorhabditis elegans] ref|NP_001023099.1| C54E4.2b [Caenorhabditis elegans] 1.0E-135
blast AAK29794 Hypothetical protein C54E4.2a [Caenorhabditis elegans] ref|NP_001023098.1| C54E4.2a [Caenorhabditis elegans] 1.0E-135
Protein Domains
Database ID Description E-Value
Pfam IPR002048 EMBL-EBI Calcium-binding EF-hand 0.029
Pfam IPR000716 EMBL-EBI Thyroglobulin type-1 8.5E-14
Pfam IPR000716 EMBL-EBI Thyroglobulin type-1 8.5E-14
Sequence
Target Sequence 
>C. ELEGANS:180685_AT
cttgaaaagccatcatccgctgacaagccagttcacgagaaaaatcactgcactagatcc
gaattgatgcgtatgggagggcgtcttgtgaaatggttcaaggacgttcatgcacaggaa
tccggagccgatcatactttgaaattgcattcggtgccatgtcgtgttgaggtcggatgg
atgttcaaccaatgggatggaaatcaggatggaaagctttccaaggccgaactccgtccg
atcgagagaggaggcaacgaggcgtgcgtcgaggagttcattgacatgtgtgacgatatg
gtagtcgatggttcgatttctgtggatgagtggtgtgattgcttcaccttctccgacgac
ttgagacatgagccaccatgccataaggccaagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTTGAAAAGCCATCATCCGCTGACA 268 217 82 Antisense
TCCGCTGACAAGCCAGTTCACGAGA 674 593 97 Antisense
GATGCGTATGGGAGGGCGTCTTGTG 571 413 147 Antisense
GGACGTTCATGCACAGGAATCCGGA 279 523 183 Antisense
AATCCGGAGCCGATCATACTTTGAA 353 167 200 Antisense
TTCGGTGCCATGTCGTGTTGAGGTC 21 693 231 Antisense
CGAACTCCGTCCGATCGAGAGAGGA 596 251 309 Antisense
ACGAGGCGTGCGTCGAGGAGTTCAT 424 93 338 Antisense
AGTGGTGTGATTGCTTCACCTTCTC 172 59 410 Antisense
GACGACTTGAGACATGAGCCACCAT 543 377 436 Antisense
GAGCCACCATGCCATAAGGCCAAGC 449 385 451 Antisense
Sequence Source Affymetrix Proprietary Database