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[180389_s_at]

Description C09D4.1 /REP_DB=WormBase Gene ID /WP=CE27671 /TR=O01735 /GB=AAB53976.2 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 21      6grp_high1_10_10 > 13      4grp_highest_8_8 > 51      4grp_high_8_8 > 24      6grp_highest_nonorm > 60      6grp_total > 14      4grp_total > 39      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 796
1 2 3 4 range
A 802.2
(3)
P 		120.3
(-3)
P 		183.3
(-2.4)
P 		261.8
(-1.8)
P 		682
B 690.2
(3)
P 		241.2
(-2.1)
P 		158.1
(-3)
P 		319.9
(-1.2)
P 		532
C 916.6
(3)
P 		276.2
(-2)
P 		155.5
(-3)
P 		248.6
(-2.3)
P 		761
avr 803
(3) 		212.6
(-2.6) 		165.6
(-3) 		276.8
(-2) 		637

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 478
1 2 3 4 5 6 range
A 516.6
(3)
P 		505.6
(2.8)
P 		398.1
(0.9)
P 		265
(-1.4)
P 		256.5
(-1.6)
P 		174.2
(-3)
P 		342
B 652.3
(3)
P 		554.2
(1.6)
P 		585.6
(2)
P 		409.8
(-0.6)
P 		305.8
(-2.1)
P 		243.7
(-3)
P 		409
C 599.2
(3)
P 		468.8
(0.9)
P 		298.2
(-1.9)
P 		507
(1.5)
P 		232.3
(-3)
P 		310.6
(-1.7)
P 		367
avr 589.4
(3) 		509.5
(1.6) 		427.3
(0.2) 		393.9
(-0.4) 		264.9
(-2.6) 		242.8
(-3) 		347
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 277
1 2 3 4 range
A 292.1
(3)
P 		26.1
(-3)
P 		47.9
(-2.5)
P 		38.3
(-2.7)
P 		266
B 220.1
(3)
P 		59.6
(-2.2)
P 		36.6
(-3)
P 		68.2
(-2)
P 		184
C 303.4
(3)
P 		79.4
(-2.1)
P 		54.2
(-2.7)
P 		41.9
(-3)
P 		262
avr 271.9
(3) 		55
(-2.8) 		46.2
(-3) 		49.5
(-2.9) 		226

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 185
1 2 3 4 5 6 range
A 95.2
(-0.7)
P 		179.8
(3)
P 		86.7
(-1.1)
P 		67.2
(-1.9)
P 		77.4
(-1.5)
P 		42.4
(-3)
P 		137
B 227
(3)
P 		184.5
(1.1)
P 		142.2
(-0.7)
P 		108.5
(-2.2)
P 		124.2
(-1.5)
P 		90.9
(-3)
P 		136
C 222.1
(3)
P 		143
(-0.2)
P 		75.9
(-3)
P 		102
(-1.9)
P 		75.2
(-3)
P 		104
(-1.8)
P 		147
avr 181.4
(3) 		169.1
(2.3) 		101.6
(-1.7) 		92.6
(-2.2) 		92.3
(-2.2) 		79.1
(-3) 		102
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 180389_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1456
Sequence Type Exemplar sequence
Representative Public ID C09D4.1 NCBI
Target Description C09D4.1 /REP_DB=WormBase Gene ID /WP=CE27671 /TR=O01735 /GB=AAB53976.2 /SUBMIT=ST.LOUIS /CHR=1 /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_001025820(11), NM_001025821(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001025820 NCBI Caenorhabditis elegans C09D4.1a (C09D4.1) mRNA, complete cds. 11/11 None
NM_001025821 NCBI Caenorhabditis elegans C09D4.1b (C09D4.1) mRNA, complete cds. 11/11 None
SNAP00000013434 ENSEMBL cdna:SNAP chromosome:CEL140:I:5500959:5503777:1 9/11 None
GENEFINDER00000013464 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:5500959:5505085:1 11/11 None
C09D4.1a ENSEMBL cdna:known chromosome:CEL140:I:5497835:5505446:1 gene:C09D4.1 11/11 None
C09D4.1b.2 ENSEMBL cdna:known chromosome:CEL140:I:5498852:5505085:1 gene:C09D4.1 11/11 None
C09D4.1b.1 ENSEMBL cdna:known chromosome:CEL140:I:5498853:5505085:1 gene:C09D4.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000013435 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:5497919-5505085(+) 100.0 100.0
Public Domain and Genome References
Ensembl C09D4.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB53976 Hypothetical protein C09D4.1a [Caenorhabditis elegans] ref|NP_001020991.1| C09D4.1a [Caenorhabditis elegans] sp|O01735|YC91_CAEEL Hypothetical transporter C09D4.1 0.0
blast CAE67072 Hypothetical protein CBG12481 [Caenorhabditis briggsae] 0.0
blast AAV34797 Hypothetical protein C09D4.1b [Caenorhabditis elegans] ref|NP_001020992.1| C09D4.1b [Caenorhabditis elegans] 0.0
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001020991.1 12 152-174,189-211,218-236,251-273,280-302,317-339,375-397,410-432,439-461,466-488,504-526,530-552
NP_001020992.1 12 41-63,78-100,107-125,140-162,169-191,206-228,264-286,299-321,328-350,355-377,393-415,419-441
C09D4.1a 12 152-174,189-211,218-236,251-273,280-302,317-339,375-397,410-432,439-461,466-488,504-526,530-552
C09D4.1b.2 12 41-63,78-100,107-125,140-162,169-191,206-228,264-286,299-321,328-350,355-377,393-415,419-441
C09D4.1b.1 12 41-63,78-100,107-125,140-162,169-191,206-228,264-286,299-321,328-350,355-377,393-415,419-441
SNAP00000013434 8 37-59,74-96,103-125,140-162,198-220,233-255,262-284,289-311
GENEFINDER00000013464 10 37-59,74-96,103-125,140-162,198-220,233-255,262-284,289-311,363-380,385-402
Sequence
Target Sequence 
>C. ELEGANS:180389_S_AT
aatcaacaccggcgtattctatgcaatttcaacacttctctcacaaatggtcttgagcgt
ttatccgaatgaaacagagaccgttggttatgttggtctcttgattgtagttgctggaat
ggctggatccgttgttggaggtttcattttggacaagtttaagaaattcaagcttaccac
aatcatgatctacttgttctcatttgttggaatgttatcattcactctcacaattgatct
ggattctatggttcttgtattcattaacgcagctcttttgggattcttcatgaccggcta
tttgccaatcggttttgaatttgccgccgaaattacgtatccagcagctgaaggtacaac
aagtggtctactgaatgcaagtgcacagattttcggaatcgctctcacttggctcatggg
aattgtaatgcacggttttggaacattcaccagcaatattataatgagtagttgtttggt
tgttggaactattcttacttgtttcatccgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATCAACACCGGCGTATTCTATGCA 383 171 1272 Antisense
TATGCAATTTCAACACTTCTCTCAC 438 657 1291 Antisense
AAATGGTCTTGAGCGTTTATCCGAA 194 121 1316 Antisense
GTTGGTTATGTTGGTCTCTTGATTG 228 437 1354 Antisense
GATCTACTTGTTCTCATTTGTTGGA 535 419 1458 Antisense
AATGTTATCATTCACTCTCACAATT 188 165 1482 Antisense
GATCTGGATTCTATGGTTCTTGTAT 333 419 1507 Antisense
TCATGACCGGCTATTTGCCAATCGG 213 623 1559 Antisense
TTGCCGCCGAAATTACGTATCCAGC 417 701 1592 Antisense
CTCTCACTTGGCTCATGGGAATTGT 305 231 1673 Antisense
ACTATTCTTACTTGTTTCATCCGAG 210 103 1759 Antisense
Sequence Source Affymetrix Proprietary Database