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[173818_at]

Description AV190008 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=H20J18.1 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV190008 /WB_GENE_ID=H20J18.1 /WP=CE18818 /CHR=X /FEA=Genomic Cluster /GEN=scd-1 /DEF=Caenorhabditis elegans cDNA clone:yk565f7 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 62      6grp_high1_10_10 > 36      4grp_highest_8_8 > 38      4grp_high_8_8 > 03      6grp_highest_nonorm > 20      6grp_total > 37      4grp_total > 13      6grp_highest_sub > Cu      6grp_cgc > 15      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1709
1 2 3 4 range
A 1422.1
(3)
P 		747.5
(-2.4)
P 		679.2
(-3)
P 		1396.4
(2.8)
P 		743
B 1353.3
(-0.4)
P 		694.3
(-2.8)
P 		625.1
(-3)
P 		2316
(3)
P 		1691
C 1382.7
(0.5)
P 		607.4
(-3)
P 		649.6
(-2.8)
P 		1941.7
(3)
P 		1334
avr 1386
(0.6) 		683.1
(-2.8) 		651.3
(-3) 		1884.7
(3) 		1233

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1223
1 2 3 4 5 6 range
A 1094.3
(2.4)
P 		1129
(2.7)
P 		684.2
(-1.2)
P 		478.1
(-3)
P 		784.2
(-0.3)
P 		1158.3
(3)
P 		680
B 1700.8
(3)
P 		1239.9
(0.6)
P 		964.2
(-0.8)
P 		775.2
(-1.8)
P 		534.3
(-3)
P 		1191.4
(0.4)
P 		1167
C 1602.1
(3)
P 		1293.3
(0.9)
P 		731.3
(-3)
P 		765.4
(-2.8)
P 		786.4
(-2.6)
P 		941.5
(-1.6)
P 		871
avr 1465.7
(3) 		1220.7
(1.1) 		793.2
(-2.1) 		672.9
(-3) 		701.6
(-2.8) 		1097.1
(0.2) 		793
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 373
1 2 3 4 range
A 517.8
(3)
P 		162.3
(-3)
P 		177.5
(-2.7)
P 		204.4
(-2.3)
P 		356
B 431.6
(1.9)
P 		171.5
(-2.5)
P 		144.8
(-3)
P 		493.5
(3)
P 		349
C 457.7
(3)
P 		174.6
(-3)
P 		226.4
(-1.9)
P 		327.4
(0.2)
P 		283
avr 469
(3) 		169.5
(-3) 		182.9
(-2.7) 		341.8
(0.5) 		300

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 473
1 2 3 4 5 6 range
A 201.7
(-1.3)
P 		401.5
(3)
P 		149
(-2.4)
P 		121.3
(-3)
P 		236.6
(-0.5)
P 		282
(0.4)
P 		280
B 591.8
(3)
P 		412.7
(0.2)
P 		234.1
(-2.6)
P 		205.3
(-3)
P 		217.1
(-2.8)
P 		444.3
(0.7)
P 		387
C 593.8
(3)
P 		394.6
(0.3)
P 		186.1
(-2.6)
P 		153.9
(-3)
P 		254.5
(-1.6)
P 		315.2
(-0.8)
P 		440
avr 462.4
(3) 		402.9
(1.8) 		189.7
(-2.4) 		160.2
(-3) 		236.1
(-1.5) 		347.2
(0.7) 		302
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173818_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25907
Sequence Type Exemplar sequence
Representative Public ID AV190008 NCBI
Target Description AV190008 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=H20J18.1 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV190008 /WB_GENE_ID=H20J18.1 /WP=CE18818 /CHR=X /FEA=Genomic Cluster /GEN=scd-1 /DEF=Caenorhabditis elegans cDNA clone:yk565f7 : 5prime 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_171974(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171974 NCBI Caenorhabditis elegans Suppressor of Constitutive Dauer formation family member (scd-1) (scd-1) mRNA, complete cds. 11/11 None
H20J18.1a ENSEMBL cdna:known chromosome:CEL140:X:12503807:12513968:-1 gene:H20J18.1 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
181408 2 1 NM_171974 173818_at (11), 174806_at (11), 174807_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:12504361-12509138(-) 87.0 100.0
Public Domain and Genome References
Ensembl H20J18.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA18898 Hypothetical protein H20J18.1a [Caenorhabditis elegans] ref|NP_741912.1| Suppressor of Constitutive Dauer formation family member (scd-1) [Caenorhabditis elegans] 0.0
blast CAD44137 Hypothetical protein H20J18.1b [Caenorhabditis elegans] ref|NP_741911.1| Suppressor of Constitutive Dauer formation family member (scd-1) [Caenorhabditis elegans] 0.0
blast CAE57237 Hypothetical protein CBG00115 [Caenorhabditis briggsae] 1.0E-114
Sequence
Target Sequence 
>C. ELEGANS:173818_AT
attgtcacgcgacaatctgaccgtccaatgtttggacctaatttatttccagttttacct
cataaccatagaccattgtatcatcgcacccagcatcacttgacctcagggcaactgaaa
tctgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTGTCACGCGACAATCTGACCGTC 363 5 2866 Antisense
CGCGACAATCTGACCGTCCAATGTT 684 253 2873 Antisense
ACAATCTGACCGTCCAATGTTTGGA 369 113 2877 Antisense
CTGACCGTCCAATGTTTGGACCTAA 274 239 2882 Antisense
TCCAATGTTTGGACCTAATTTATTT 305 585 2889 Antisense
TAATTTATTTCCAGTTTTACCTCAT 311 573 2904 Antisense
ATTTCCAGTTTTACCTCATAACCAT 427 17 2910 Antisense
TTTACCTCATAACCATAGACCATTG 174 671 2919 Antisense
CATAGACCATTGTATCATCGCACCC 265 215 2932 Antisense
CATCACTTGACCTCAGGGCAACTGA 629 209 2959 Antisense
GACCTCAGGGCAACTGAAATCTGAA 278 383 2967 Antisense
Sequence Source Affymetrix Proprietary Database