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[174647_at]

Description CEK006CZR_rc /REP_DB=TREMBL Accession /GB=D27932 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk6c12 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 86      6grp_high1_10_10 > 77      4grp_highest_8_8 > 15      4grp_high_8_8 > 13      6grp_highest_nonorm > 98      6grp_total > 78      4grp_total > 10      6grp_highest_sub > Da      6grp_cgc > 49      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1174
1 2 3 4 range
A 845.9
(-1.4)
P 		751
(-2.2)
P 		646.2
(-3)
P 		1407
(3)
P 		761
B 708.4
(-3)
P 		888.3
(-1.9)
P 		805.5
(-2.4)
P 		1665.8
(3)
P 		957
C 735.6
(-3)
P 		829.2
(-2.5)
P 		734.8
(-3)
P 		1820
(3)
P 		1085
avr 763.3
(-2.8) 		822.8
(-2.4) 		728.8
(-3) 		1630.9
(3) 		902

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1354
1 2 3 4 5 6 range
A 967.5
(-1.6)
P 		991.9
(-1.5)
P 		663.4
(-3)
P 		734.9
(-2.7)
P 		1304.8
(-0)
P 		1966.8
(3)
P 		1303
B 1033.2
(-1.3)
P 		1054.9
(-1.2)
P 		656.9
(-3)
P 		1018.7
(-1.4)
P 		1052.9
(-1.2)
P 		2006
(3)
P 		1349
C 752.8
(-3)
P 		990.4
(-1.9)
P 		909.6
(-2.3)
P 		820.3
(-2.7)
P 		1122.3
(-1.2)
P 		2010.6
(3)
P 		1258
avr 917.8
(-2.2) 		1012.4
(-1.7) 		743.3
(-3) 		858
(-2.4) 		1160
(-1) 		1994.5
(3) 		1251
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 192
1 2 3 4 range
A 308
(3)
P 		163
(-3)
P 		168.9
(-2.8)
P 		206
(-1.2)
P 		145
B 225.9
(-1.6)
P 		219.4
(-1.8)
P 		186.7
(-3)
P 		355
(3)
P 		168
C 243.5
(-2.6)
P 		238.4
(-3)
P 		256.1
(-1.4)
P 		306.9
(3)
P 		69
avr 259.1
(0.9) 		206.9
(-2.8) 		203.9
(-3) 		289.3
(3) 		85

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 604
1 2 3 4 5 6 range
A 178.4
(-2.4)
P 		352.8
(0.7)
P 		144.5
(-3)
P 		186.4
(-2.2)
P 		393.7
(1.5)
P 		478.8
(3)
P 		334
B 359.5
(-1)
P 		351.1
(-1)
P 		159.5
(-3)
P 		269.8
(-1.9)
P 		427.8
(-0.3)
P 		748
(3)
P 		589
C 279
(-1.7)
P 		302.2
(-1.4)
P 		231.5
(-2.2)
P 		165
(-3)
P 		363.2
(-0.7)
P 		673.1
(3)
P 		508
avr 272.3
(-1.8) 		335.4
(-0.9) 		178.5
(-3) 		207.1
(-2.6) 		394.9
(-0.1) 		633.3
(3) 		455
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174647_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20227
Sequence Type Exemplar sequence
Representative Public ID CEK006CZR NCBI
Target Description CEK006CZR_rc /REP_DB=TREMBL Accession /GB=D27932 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk6c12 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_001026468(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026468 NCBI Caenorhabditis elegans SQuashed Vulva family member (sqv-5) (sqv-5) mRNA, complete cds. 11/11 None
T24D1.1a ENSEMBL cdna:known chromosome:CEL140:I:9955960:9961503:1 gene:T24D1.1 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
172851 2 1 NM_001026468 174647_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:9961037-9961424(+) 100.0 100.0
Public Domain and Genome References
Ensembl T24D1.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_001021639 SQuashed Vulva family member (sqv-5) [Caenorhabditis elegans] dbj|BAC76781.1| chondroitin synthase-S [Caenorhabditis elegans] 0.0
blast CAE17977 Hypothetical protein T24D1.1b [Caenorhabditis elegans] gb|AAO85273.1| chondroitin disaccharide polymerase [Caenorhabditis elegans] 0.0
blast AAO85274 chondroitin disaccharide polymerase [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR008428 EMBL-EBI Chondroitin N-acetylgalactosaminyltransferase 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001021639.1 1 13-35
T24D1.1a 1 13-35
Sequence
Target Sequence 
>C. ELEGANS:174647_AT
ttcctaacattgccattttcacaagaagcacacggagcttgcccccatttgaagttcaaa
tttcaaattaattaattcagttcatgtcaaataatataatagttcagttaatgacctatt
ttgaaacgagtaattgtcccatgctcccctataaagctcagcctttcattgttcaaatgt
ttatttcacttaaaacattattgattgttcttcgctttaaattccttaattcaattgttt
tctttcatattaatatgagatttccatcaaatctttgattgtttctagctttacacaatt
gtctcaccatcatcattttgtccattctgttgccatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTCCTAACATTGCCATTTTCACAAG 291 699 13 Antisense
ACAAGAAGCACACGGAGCTTGCCCC 430 113 33 Antisense
GCTTGCCCCCATTTGAAGTTCAAAT 657 305 49 Antisense
AAACGAGTAATTGTCCCATGCTCCC 638 123 136 Antisense
TCCCCTATAAAGCTCAGCCTTTCAT 465 595 157 Antisense
AGCTCAGCCTTTCATTGTTCAAATG 498 79 167 Antisense
GATTGTTCTTCGCTTTAAATTCCTT 469 433 215 Antisense
AATCTTTGATTGTTTCTAGCTTTAC 208 169 282 Antisense
CTAGCTTTACACAATTGTCTCACCA 567 225 297 Antisense
TGTCTCACCATCATCATTTTGTCCA 229 559 312 Antisense
TCATTTTGTCCATTCTGTTGCCATT 546 619 325 Antisense
Sequence Source Affymetrix Proprietary Database