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[174788_s_at]

Description CEK027E8R_rc /REP_DB=TREMBL Accession /GB=D33200 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk27e8 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 30      6grp_high1_10_10 > 14      4grp_highest_8_8 > 58      4grp_high_8_8 > 33      6grp_highest_nonorm > 51      6grp_total > 14      4grp_total > 47      6grp_highest_sub > De      6grp_cgc > 31      6grp_cgc_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.
4 805
1 2 3 4 range
A 960.2
(3)
P 		358.4
(-2.6)
P 		435.3
(-1.9)
P 		321.1
(-3)
P 		639
B 1053.9
(3)
P 		480.7
(-1.3)
P 		248.5
(-3)
P 		505.7
(-1.1)
P 		805
C 882.6
(3)
P 		433
(-1.6)
P 		402.8
(-1.9)
P 		293
(-3)
P 		590
avr 965.6
(3) 		424
(-2.4) 		362.2
(-3) 		373.3
(-2.9) 		603

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 512
1 2 3 4 5 6 range
A 820.5
(3)
P 		615.2
(0.6)
P 		458.8
(-1.2)
P 		376.6
(-2.2)
P 		514.7
(-0.6)
P 		308.6
(-3)
P 		512
B 682.3
(2)
P 		753.1
(3)
P 		596.6
(0.8)
P 		638
(1.4)
P 		437.8
(-1.5)
P 		329.7
(-3)
P 		423
C 728.7
(3)
P 		691
(2.4)
P 		538.8
(0)
P 		488.5
(-0.8)
P 		369.3
(-2.6)
P 		345.3
(-3)
P 		383
avr 743.8
(3) 		686.4
(2.2) 		531.4
(-0.1) 		501
(-0.5) 		440.6
(-1.4) 		327.9
(-3) 		416
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 303
1 2 3 4 range
A 349.6
(3)
P 		77.8
(-2.4)
P 		113.8
(-1.7)
P 		47
(-3)
P 		303
B 336.1
(3)
P 		118.7
(-1.7)
P 		57.6
(-3)
P 		107.8
(-1.9)
P 		279
C 292.2
(3)
P 		124.5
(-1.1)
P 		140.4
(-0.8)
P 		49.4
(-3)
P 		243
avr 326
(3) 		107
(-2.1) 		103.9
(-2.2) 		68.1
(-3) 		258

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 195
1 2 3 4 5 6 range
A 151.3
(0.2)
P 		218.8
(3)
P 		99.9
(-2)
P 		95.5
(-2.1)
P 		155.3
(0.3)
P 		75.1
(-3)
P 		144
B 237.4
(2.4)
P 		250.7
(3)
P 		144.9
(-2)
P 		169
(-0.8)
P 		177.9
(-0.4)
P 		123
(-3)
P 		128
C 270.1
(3)
P 		210.8
(0.9)
P 		137.1
(-1.6)
P 		98.2
(-3)
P 		119.5
(-2.3)
P 		115.6
(-2.4)
P 		172
avr 219.6
(2.6) 		226.8
(3) 		127.3
(-1.9) 		120.9
(-2.2) 		150.9
(-0.7) 		104.6
(-3) 		122
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174788_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.22464
Sequence Type Exemplar sequence
Representative Public ID CEK027E8R NCBI
Target Description CEK027E8R_rc /REP_DB=TREMBL Accession /GB=D33200 /CHR=X /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk27e8 : 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_171659(11), NM_001029806(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171659 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-18) (ceh-18) mRNA, complete cds. 11/11 A 
NM_001029806 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-18) (ceh-18) mRNA, complete cds. 11/11 None
ZC64.3b ENSEMBL cdna:known chromosome:CEL140:X:3843357:3857723:-1 gene:ZC64.3 11/11 A 
ZC64.3a ENSEMBL cdna:known chromosome:CEL140:X:3843357:3857777:-1 gene:ZC64.3 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
180671 3 2 NM_001029806 174788_s_at (11), 187890_at (11)
NM_171659 174788_s_at (11), 187890_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:3843369-3843740(-) 100.0 100.0
Public Domain and Genome References
Ensembl ZC64.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA80426 C.elegans homeobox protein 18, isoform a [Caenorhabditis elegans] ref|NP_741758.1| C.Elegans Homeobox family member (ceh-18) [Caenorhabditis elegans] sp|P41934|HM18_CAEEL Homeobox protein ceh-18 gb|AAA52203.1| CEH-18 0.0
blast AAM69077 C.elegans homeobox protein 18, isoform b [Caenorhabditis elegans] ref|NP_001024977.1| C.Elegans Homeobox family member (ceh-18) [Caenorhabditis elegans] 0.0
blast CAE68492 Hypothetical protein CBG14297 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 4.00000007816593E-24
Pfam IPR001356 EMBL-EBI Homeobox 1.2E-21
Pfam IPR000327 EMBL-EBI POU domain 1.1E-50
Pfam IPR001356 EMBL-EBI Homeobox 1.2E-21
Pfam IPR000327 EMBL-EBI POU domain 1.1E-50
Sequence
Target Sequence 
>C. ELEGANS:174788_S_AT
gtacgctgaaagttcatgtttttctcagagtgtttttgcctttttgtgtatctatgataa
ttgtacgttccggtgagatttctaggttgttcatctcattctttcccgataattgcttga
aacccaccgacacactccgtttgaatattcacctccccattcttcctggtgcatagttac
gatatattcaattggaactgctggtttcgatttttaaaacccggagcttttcttctgata
gggtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTACGCTGAAAGTTCATGTTTTTCT 350 459 88 Antisense
AAGTTCATGTTTTTCTCAGAGTGTT 668 155 97 Antisense
CTCAGAGTGTTTTTGCCTTTTTGTG 679 227 111 Antisense
TTTGCCTTTTTGTGTATCTATGATA 316 669 122 Antisense
CATCTCATTCTTTCCCGATAATTGC 148 213 179 Antisense
CGATAATTGCTTGAAACCCACCGAC 380 247 194 Antisense
CACCGACACACTCCGTTTGAATATT 52 201 212 Antisense
CACTCCGTTTGAATATTCACCTCCC 578 197 220 Antisense
TTCCTGGTGCATAGTTACGATATAT 499 697 250 Antisense
TTGGAACTGCTGGTTTCGATTTTTA 66 707 279 Antisense
CCGGAGCTTTTCTTCTGATAGGGTC 40 261 308 Antisense
Sequence Source Affymetrix Proprietary Database