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[174406_at]

Description C36338_rc /REP_DB=TREMBL Accession /GB=C36338 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk458f2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 70      6grp_high1_10_10 > 18      4grp_highest_8_8 > 46      4grp_high_8_8 > 02      6grp_highest_nonorm > 30      6grp_total > 16      4grp_total > 14      6grp_highest_sub > De      6grp_cgc > 12      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 641
1 2 3 4 range
A 829.5
(1.3)
P 		424.9
(-3)
P 		424.2
(-3)
P 		996.3
(3)
P 		572
B 828.1
(2)
P 		400.1
(-2.6)
P 		361.3
(-3)
P 		924.4
(3)
P 		563
C 921.2
(2.2)
P 		455.5
(-2.6)
P 		417.9
(-3)
P 		1002.3
(3)
P 		584
avr 859.6
(1.8) 		426.8
(-2.7) 		401.1
(-3) 		974.3
(3) 		573

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1115
1 2 3 4 5 6 range
A 1523.3
(3)
P 		1031.7
(0.2)
P 		484.6
(-3)
P 		482.8
(-3)
P 		718.2
(-1.6)
P 		512.9
(-2.8)
P 		1041
B 1434.4
(3)
P 		1039
(0.6)
P 		431.9
(-3)
P 		624
(-1.9)
P 		618.9
(-1.9)
P 		622.1
(-1.9)
P 		1003
C 1546.4
(3)
P 		809.8
(-1.1)
P 		631.7
(-2.1)
P 		586.1
(-2.4)
P 		606.2
(-2.3)
P 		475.3
(-3)
P 		1071
avr 1501.4
(3) 		960.2
(-0.3) 		516.1
(-3) 		564.3
(-2.7) 		647.8
(-2.2) 		536.8
(-2.9) 		985
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 221
1 2 3 4 range
A 302
(3)
P 		92.2
(-3)
P 		110.9
(-2.5)
P 		145.8
(-1.5)
P 		210
B 264.1
(3)
P 		98.8
(-2.5)
P 		83.7
(-3)
P 		197
(0.8)
P 		180
C 304.9
(3)
P 		131
(-3)
P 		145.6
(-2.5)
P 		169
(-1.7)
P 		174
avr 290.3
(3) 		107.3
(-3) 		113.4
(-2.8) 		170.6
(-0.9) 		183

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 468
1 2 3 4 5 6 range
A 280.8
(1)
P 		366.9
(3)
P 		105.5
(-3)
P 		122.5
(-2.6)
P 		216.7
(-0.4)
P 		124.9
(-2.6)
P 		261
B 499.1
(3)
P 		345.9
(0.7)
P 		104.9
(-3)
P 		165.3
(-2.1)
P 		251.5
(-0.8)
P 		232
(-1.1)
P 		394
C 573.2
(3)
P 		247.1
(-1.3)
P 		160.8
(-2.4)
P 		117.9
(-3)
P 		196.1
(-2)
P 		159.1
(-2.5)
P 		455
avr 451
(3) 		320
(0.6) 		123.7
(-3) 		135.2
(-2.8) 		221.4
(-1.2) 		172
(-2.1) 		327
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174406_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21168
Sequence Type Exemplar sequence
Representative Public ID C36338 NCBI
Target Description C36338_rc /REP_DB=TREMBL Accession /GB=C36338 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk458f2 : 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_001026082(11), NM_065384(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026082 NCBI Caenorhabditis elegans TIR (Toll and Interleukin 1 Receptor) domain protein family member (tir-1) (tir-1) mRNA, complete cds. 11/11 None
NM_065384 NCBI Caenorhabditis elegans TIR (Toll and Interleukin 1 Receptor) domain protein family member (tir-1) (tir-1) mRNA, complete cds. 11/11 None
F13B10.1e.3 ENSEMBL cdna:known chromosome:CEL140:III:3869569:3887585:-1 gene:F13B10.1 11/11 None
F13B10.1e.1 ENSEMBL cdna:known chromosome:CEL140:III:3869572:3901441:-1 gene:F13B10.1 11/11 None
F13B10.1e.2 ENSEMBL cdna:known chromosome:CEL140:III:3869585:3882700:-1 gene:F13B10.1 11/11 None
F13B10.1b ENSEMBL cdna:known chromosome:CEL140:III:3869595:3873499:-1 gene:F13B10.1 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
175502 5 2 NM_001026082 174406_at (11)
NM_065384 174406_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:3869638-3869927(-) 100.0 100.0
Public Domain and Genome References
Ensembl F13B10.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAV91313 Toll and interleukin 1 receptor domain protein isoform c [Caenorhabditis elegans] 0.0
blast AAV91312 Toll and interleukin 1 receptor domain protein isoform a [Caenorhabditis elegans] 0.0
blast CAE47467 Hypothetical protein F13B10.1e [Caenorhabditis elegans] ref|NP_001021253.1| TIR (Toll and Interleukin 1 Receptor) domain protein family member (tir-1) [Caenorhabditis elegans] 0.0
blast CAA90181 Hypothetical protein F13B10.1b [Caenorhabditis elegans] ref|NP_497785.1| TIR (Toll and Interleukin 1 Receptor) domain protein family member (tir-1) [Caenorhabditis elegans] 0.0
blast AAV91314 Toll and interleukin 1 receptor domain protein isoform f [Caenorhabditis elegans] 0.0
blast CAE60087 Hypothetical protein CBG03611 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000157 EMBL-EBI TIR 8.0E-5
Pfam IPR001660 EMBL-EBI Sterile alpha motif SAM 8.5E-21
Pfam IPR000157 EMBL-EBI TIR 8.0E-5
Pfam IPR001660 EMBL-EBI Sterile alpha motif SAM 8.5E-21
Sequence
Target Sequence 
>C. ELEGANS:174406_AT
tgccctgccgttttctgcaaataataataataattgtaataatctctataaattatgtga
ttgatgtctttatgaaaccaaaaagaaaactctgaaacttcactttcttataatctttct
gtttatatattccgatctccatctgtttcattcgtttcactttttctgttttatttcctg
caacgtgtaatagtcgatcaacccccaactcaggaacccatcaaattcgaacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCCCTGCCGTTTTCTGCAAATAAT 215 585 39 Antisense
TGTGATTGATGTCTTTATGAAACCA 35 555 94 Antisense
GAAAACTCTGAAACTTCACTTTCTT 391 355 123 Antisense
ACTTCACTTTCTTATAATCTTTCTG 414 103 135 Antisense
TTCTGTTTATATATTCCGATCTCCA 242 695 155 Antisense
CGATCTCCATCTGTTTCATTCGTTT 509 249 171 Antisense
TTCATTCGTTTCACTTTTTCTGTTT 229 689 185 Antisense
TTTTCTGTTTTATTTCCTGCAACGT 506 677 200 Antisense
CAACGTGTAATAGTCGATCAACCCC 50 187 219 Antisense
CCCCAACTCAGGAACCCATCAAATT 103 261 241 Antisense
CTCAGGAACCCATCAAATTCGAACC 250 229 247 Antisense
Sequence Source Affymetrix Proprietary Database