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[187890_at]

Description ZC64.3 /REP_DB=WormBase Gene ID /WP=CE25674 /GEN=ceh-18 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=homeobox protein
Cluster 6grp_highest_10_10 > 30      6grp_high1_10_10 > 14      4grp_highest_8_8 > 58      4grp_high_8_8 > 33      6grp_highest_nonorm > 70      6grp_total > 02      4grp_total > 46      6grp_highest_sub > De      6grp_cgc > 42      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 339
1 2 3 4 range
A 470.6
(3)
P 		212.1
(-2)
P 		200.6
(-2.2)
P 		159.7
(-3)
P 		311
B 480.4
(3)
P 		213.3
(-2.3)
P 		186.6
(-2.8)
P 		177.7
(-3)
P 		303
C 486.2
(3)
P 		286
(-0.5)
P 		147.6
(-3)
P 		212.4
(-1.9)
P 		339
avr 479.1
(3) 		237.1
(-1.8) 		178.3
(-3) 		183.3
(-2.9) 		301

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 437
1 2 3 4 5 6 range
A 290.7
(0.8)
P 		406.2
(3)
P 		319.3
(1.3)
P 		168.8
(-1.5)
P 		375.3
(2.4)
P 		92.9
(-3)
P 		313
B 432
(2.7)
P 		449.1
(3)
P 		285.8
(-0.1)
P 		295.2
(0.1)
P 		348.7
(1.1)
P 		134.1
(-3)
P 		315
C 530
(3)
P 		460.8
(2)
P 		319.8
(-0.1)
P 		299.9
(-0.4)
P 		286.8
(-0.6)
P 		128
(-3)
P 		402
avr 417.6
(2.6) 		438.7
(3) 		308.3
(0.6) 		254.6
(-0.4) 		336.9
(1.1) 		118.3
(-3) 		320
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 148
1 2 3 4 range
A 171.3
(3)
P 		46
(-2.1)
P 		52.4
(-1.8)
P 		23.4
(-3)
P 		148
B 153.2
(3)
P 		52.7
(-2.2)
P 		43.2
(-2.7)
P 		37.9
(-3)
P 		115
C 160.9
(3)
P 		82.2
(-0.8)
P 		51.4
(-2.3)
P 		35.8
(-3)
P 		125
avr 161.8
(3) 		60.3
(-1.7) 		49
(-2.2) 		32.4
(-3) 		129

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 174
1 2 3 4 5 6 range
A 53.6
(-1.5)
P 		144.5
(3)
P 		69.5
(-0.7)
P 		42.8
(-2)
P 		113.3
(1.5)
P 		22.6
(-3)
P 		122
B 150.3
(3)
P 		149.5
(3)
P 		69.4
(-1.8)
P 		78.2
(-1.3)
P 		141.7
(2.5)
P 		50
(-3)
P 		100
C 196.4
(3)
P 		140.6
(0.8)
P 		81.4
(-1.5)
P 		60.3
(-2.3)
P 		92.8
(-1)
P 		42.8
(-3)
P 		154
avr 133.4
(2.4) 		144.9
(3) 		73.4
(-1) 		60.4
(-1.8) 		115.9
(1.4) 		38.5
(-3) 		106
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187890_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18408
Sequence Type Exemplar sequence
Representative Public ID ZC64.3 NCBI
Target Description ZC64.3 /REP_DB=WormBase Gene ID /WP=CE25674 /GEN=ceh-18 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=homeobox protein
Cluster Evidence This cluster is supported by a 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_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
SNAP00000028296 ENSEMBL cdna:SNAP chromosome:CEL140:X:3844199:3848262:-1 9/11 None
GENEFINDER00000028309 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:3844199:3845409:-1 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
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001029807 3/11 Cross Hyb Matching Probes None
ZC64.3c 3/11 Cross Hyb Matching Probes None
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:3844199-3857724(-) 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 6.99999984096753E-24
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 4.99999999909979E-24
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
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:187890_AT
aaccatttcacgtttcgaagcgctgaacctgtcattcaaaaacatgtgcaaactgaggcc
tttgttgaaggaatggctagcagatgtggagatggcaatcgaaggtggtgcaactgtcac
agatctcattgacaaaaagacaattcacaatggcaaccatcacaccattcatcacgttga
tattcacgaaacatcaatctcaaattcaatctcttctgttactgctagcagtcttcttag
cagagagcagcatgtaaaacgaaggagaaagaggacgaatttggatatgaatcagcgaaa
tgctctggacactttttttgcgctgaacccacgtcccgaccatgataagatgacagatat
tgcaaactctctagagctcgaccgggatgttgtaagggtatggttctgtaatcgtcgtca
aaagatgagaagagtcgatgagccaattgagggagaaatggtaacaccgtctgttagtcc
tgtcttcccgcatttttcatctatgagtgcgctggagcaaattcaagaagccgctaggtt
agcttcttgtca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACCATTTCACGTTTCGAAGCGCTG 102 143 1014 Antisense
GGTGGTGCAACTGTCACAGATCTCA 137 499 1117 Antisense
CCATCACACCATTCATCACGTTGAT 410 271 1170 Antisense
TCAATCTCTTCTGTTACTGCTAGCA 454 633 1219 Antisense
ATGCTCTGGACACTTTTTTTGCGCT 543 41 1313 Antisense
CCCACGTCCCGACCATGATAAGATG 168 259 1341 Antisense
TCTCTAGAGCTCGACCGGGATGTTG 510 609 1381 Antisense
AGGGTATGGTTCTGTAATCGTCGTC 447 55 1408 Antisense
TGGTAACACCGTCTGTTAGTCCTGT 50 551 1472 Antisense
TCTTCCCGCATTTTTCATCTATGAG 611 617 1496 Antisense
AAGCCGCTAGGTTAGCTTCTTGTCA 284 149 1541 Antisense
Sequence Source Affymetrix Proprietary Database