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[174086_s_at]

Description C56869 /REP_DB=TREMBL Accession /GB=C56869 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk307a10 : 3prime end, single read.
Cluster 6grp_total > 64      4grp_total > 03      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 120
1 2 3 4 range
A 116.4
(-0.9)
A 		97.2
(-2.2)
A 		84.8
(-3)
A 		175.6
(3)
P 		91
B 55.3
(-3)
A 		91.9
(-0.6)
A 		77.1
(-1.5)
A 		145.2
(3)
P 		90
C 111.8
(-0.1)
P 		73.5
(-3)
A 		77.6
(-2.7)
A 		152.5
(3)
P 		79
avr 94.5
(-1.9) 		87.5
(-2.4) 		79.8
(-3) 		157.8
(3) 		78

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 117
1 2 3 4 5 6 range
A 64.8
(-3)
A 		126.8
(0.2)
P 		182.1
(3)
M 		147.4
(1.2)
P 		97.5
(-1.3)
P 		129
(0.3)
A 		117
B 126.8
(3)
P 		80.1
(-3)
P 		101.6
(-0.2)
A 		100.4
(-0.4)
P 		83.4
(-2.6)
P 		97.9
(-0.7)
P 		47
C 134.9
(2.7)
A 		91.5
(-3)
A 		103.1
(-1.5)
A 		121.6
(1)
P 		122.7
(1.1)
A 		136.9
(3)
P 		45
avr 108.8
(-1.1) 		99.5
(-3) 		128.9
(3) 		123.1
(1.8) 		101.2
(-2.7) 		121.3
(1.4) 		29
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 25
1 2 3 4 range
A 42.4
(3)
A 		21.1
(-3)
A 		22.2
(-2.7)
A 		25.7
(-1.7)
P 		21
B 17.6
(-3)
A 		22.7
(-0.7)
A 		17.9
(-2.9)
A 		30.9
(3)
P 		13
C 37
(3)
P 		21.1
(-3)
A 		27
(-0.8)
A 		25.7
(-1.3)
P 		16
avr 32.3
(3) 		21.6
(-3) 		22.4
(-2.6) 		27.4
(0.3) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 38
1 2 3 4 5 6 range
A 11.9
(-3)
A 		45.1
(3)
P 		39.7
(2)
M 		37.4
(1.6)
P 		29.4
(0.2)
P 		31.4
(0.5)
A 		33
B 44.1
(3)
P 		26.7
(-2.4)
P 		24.7
(-3)
A 		26.6
(-2.4)
P 		33.9
(-0.2)
P 		36.5
(0.6)
P 		19
C 50
(3)
A 		27.9
(-2.2)
A 		26.2
(-2.6)
A 		24.5
(-3)
P 		39.7
(0.6)
A 		45.8
(2)
P 		26
avr 35.3
(1.1) 		33.2
(-0.4) 		30.2
(-2.5) 		29.5
(-3) 		34.3
(0.4) 		37.9
(3) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174086_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21594
Sequence Type Exemplar sequence
Representative Public ID C56869 NCBI
Target Description C56869 /REP_DB=TREMBL Accession /GB=C56869 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk307a10 : 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_067496(11), NM_067495(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067496 NCBI Caenorhabditis elegans T21D12.9c (T21D12.9) mRNA, complete cds. 11/11 None
NM_067495 NCBI Caenorhabditis elegans T21D12.9a (T21D12.9) mRNA, complete cds. 11/11 A 
SNAP00000019189 ENSEMBL cdna:SNAP chromosome:CEL140:IV:276061:278883:1 11/11 None
GENEFINDER00000019195 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:274626:279815:1 11/11 None
T21D12.9c.1 ENSEMBL cdna:known chromosome:CEL140:IV:274570:278272:1 gene:T21D12.9 11/11 None
T21D12.9c.2 ENSEMBL cdna:known chromosome:CEL140:IV:274602:278272:1 gene:T21D12.9 11/11 None
T21D12.9a ENSEMBL cdna:known chromosome:CEL140:IV:274626:279938:1 gene:T21D12.9 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
176849 3 2 NM_067494 186885_at (11)
NM_067495 174086_s_at (11), 186872_s_at (11)
NM_067496 174086_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:277888-278218(+) 100.0 100.0
Public Domain and Genome References
Ensembl T21D12.9
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK72065 Hypothetical protein T21D12.9c [Caenorhabditis elegans] ref|NP_499897.1| T21D12.9c [Caenorhabditis elegans] 0.0
blast AAK72063 Hypothetical protein T21D12.9a [Caenorhabditis elegans] ref|NP_499896.1| T21D12.9a [Caenorhabditis elegans] 0.0
blast CAE74714 Hypothetical protein CBG22529 [Caenorhabditis briggsae] 0.0
blast T28714 hypothetical protein T21D12.9a - Caenorhabditis elegans 0.0
blast T28715 hypothetical protein T21D12.9b - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0017
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.092
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.014
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.16
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0080
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.15
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0013
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 7.7E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.036
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0068
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0024
Pfam IPR000372 EMBL-EBI Cysteine-rich flanking region, N-terminal 1.4E-6
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 7.1E-4
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.6E-6
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 2.0E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.15
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0013
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 7.7E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.036
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0068
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0024
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 7.1E-4
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 1.6E-6
Pfam IPR007110 EMBL-EBI Immunoglobulin-like 2.0E-4
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499896.1 1 839-861
T21D12.9a 1 839-861
GENEFINDER00000019195 1 839-861
Sequence
Target Sequence 
>C. ELEGANS:174086_S_AT
tctcgttggacagacagcaaaatttttatgtgcagccacaggaactccaagaccggaaat
caaatgggcattcgaacaaattccgtttccagccgcagaagccagaaggctatatgtaac
accaaatgacgatcacatttatataatgaatgtgacaaaagaagatcaaggagcatacac
ttgtcatgcaactaatgttgccgggcaaacacaagcgagcgcaaatttgattgtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTCGTTGGACAGACAGCAAAATTT 624 609 13 Antisense
GACAGCAAAATTTTTATGTGCAGCC 710 357 25 Antisense
TGTGCAGCCACAGGAACTCCAAGAC 520 555 41 Antisense
GGAACTCCAAGACCGGAAATCAAAT 277 529 53 Antisense
TTCGAACAAATTCCGTTTCCAGCCG 378 691 83 Antisense
GCCAGAAGGCTATATGTAACACCAA 556 277 113 Antisense
ATATGTAACACCAAATGACGATCAC 16 21 124 Antisense
AGGAGCATACACTTGTCATGCAACT 70 57 181 Antisense
GTCATGCAACTAATGTTGCCGGGCA 688 465 195 Antisense
TGCCGGGCAAACACAAGCGAGCGCA 422 543 211 Antisense
ACAAGCGAGCGCAAATTTGATTGTT 74 113 223 Antisense
Sequence Source Affymetrix Proprietary Database