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[189136_at]

Description R03C1.3 /REP_DB=WormBase Gene ID /WP=CE25964 /TR=O17978 /GB=CAB05260.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Homeobox domain
Cluster 6grp_total > 26      4grp_total > 0      6grp_cgc > 44      6grp_cgc_sub > 02      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 73
1 2 3 4 range
A 38.1
(-3)
A 		57.2
(-0.6)
A 		85.4
(3)
A 		73.1
(1.4)
A 		47
B 78.7
(2.7)
A 		12.1
(-3)
A 		61.5
(1.3)
A 		81.8
(3)
A 		70
C 36.4
(-3)
A 		45.2
(-1.9)
A 		72.1
(1.6)
A 		83
(3)
A 		47
avr 51.1
(-1.1) 		38.2
(-3) 		73
(2.1) 		79.3
(3) 		41

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 92
1 2 3 4 5 6 range
A 21.3
(-1.8)
A 		78.6
(2.4)
A 		68.1
(1.7)
A 		4.2
(-3)
A 		8.4
(-2.7)
A 		86.6
(3)
A 		82
B 46.3
(1.2)
A 		62.5
(3)
A 		9
(-3)
A 		18.5
(-1.9)
A 		42.7
(0.8)
A 		36
(0)
A 		54
C 93.8
(2.8)
A 		45
(-0.9)
A 		84.3
(2.1)
A 		56
(-0.1)
A 		96.4
(3)
A 		17.7
(-3)
A 		79
avr 53.8
(1.6) 		62
(3) 		53.8
(1.6) 		26.2
(-3) 		49.2
(0.9) 		46.8
(0.5) 		36
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 22
1 2 3 4 range
A 13.9
(-1.3)
A 		12.4
(-2.1)
A 		22.3
(3)
A 		10.7
(-3)
A 		12
B 25.1
(3)
A 		3
(-3)
A 		14.2
(0)
A 		17.4
(0.9)
A 		22
C 12.1
(-3)
A 		13
(-2.6)
A 		25.1
(3)
A 		14
(-2.1)
A 		13
avr 17
(1.1) 		9.5
(-3) 		20.5
(3) 		14
(-0.5) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 34
1 2 3 4 5 6 range
A 3.9
(-2.4)
A 		28
(3)
A 		14.8
(0.1)
A 		1.1
(-3)
A 		2.5
(-2.7)
A 		21.1
(1.5)
A 		27
B 16.1
(1.5)
A 		20.8
(3)
A 		2.2
(-3)
A 		4.9
(-2.1)
A 		17.3
(1.9)
A 		13.4
(0.6)
A 		19
C 34.8
(3)
A 		13.7
(-1.4)
A 		21.5
(0.2)
A 		11.3
(-1.9)
A 		31.2
(2.3)
A 		5.9
(-3)
A 		29
avr 18.3
(2) 		20.8
(3) 		12.8
(-0.2) 		5.8
(-3) 		17
(1.5) 		13.5
(0.1) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189136_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3246
Sequence Type Exemplar sequence
Representative Public ID R03C1.3 NCBI
Target Description R03C1.3 /REP_DB=WormBase Gene ID /WP=CE25964 /TR=O17978 /GB=CAB05260.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Homeobox domain
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_001027093(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027093 NCBI Caenorhabditis elegans Connection Of Gonad defective family member (cog-1) (cog-1) mRNA, complete cds. 11/11 None
GENEFINDER00000004747 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:14902409:14907029:1 11/11 None
R03C1.3a ENSEMBL cdna:known chromosome:CEL140:II:14902383:14907423:1 gene:R03C1.3 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_182115 6/11 Cross Hyb Matching Probes None
SNAP00000004733 3/11 Cross Hyb Matching Probes None
SNAP00000004734 7/11 Cross Hyb Matching Probes None
R03C1.3b 6/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175149 2 1 NM_001027093 175384_at (11), 189136_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:14902405-14907026(+) 99.61 100.0
Public Domain and Genome References
Ensembl R03C1.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05260 Hypothetical protein R03C1.3a [Caenorhabditis elegans] ref|NP_001022264.1| Connection Of Gonad defective family member (cog-1) [Caenorhabditis elegans] gb|AAN72826.1| COG-1A [Caenorhabditis elegans] 1.0E-111
blast CAE73438 Hypothetical protein CBG20882 [Caenorhabditis briggsae] 3.0E-94
blast CAD62039 Hypothetical protein R03C1.3b [Caenorhabditis elegans] ref|NP_871915.1| Connection Of Gonad defective family member (cog-1) [Caenorhabditis elegans] gb|AAN72827.1| COG-1B [Caenorhabditis elegans] 1.0E-54
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 4.99999984132761E-20
Pfam IPR001356 EMBL-EBI Homeobox 1.9E-28
Sequence
Target Sequence 
>C. ELEGANS:189136_AT
gatgatcagcggagtccgtcggcaacttcttcattcatttttccgccagcttcatcgtcc
tcctcgtcggaaagtgccacgtcaccaacacagattatggctcagcttatggcaaatggt
ggagcagttgacccgggtcttcaggcatacttcttccttctacagtcccagttaaacagc
caatcaatgatgaaccgagtaacacaggaaaacgtaagccgagctctcacctccttcaac
ctgctcaacaacctgcccggcgcccttccatcactctccccaatggggcgactccagcac
tcaatgcaactctccccgaactccctgaacatgcagaagaagcaaagcagacccacattc
accggccatcagatctatcagctggagcggaagttcgagcaaaccaagtacctagccgga
gcagatcgtgcacagctcgcccaggagcttaacatgagcgagagtcaagttaaggtgtgg
ttccaaaaccgtcgtacaaaatggcgcaagaaggaagcggccgacaatgcactggtcaaa
cgtggtgccagcggcgacaagt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGATCAGCGGAGTCCGTCGGCAA 248 411 181 Antisense
AGTTGACCCGGGTCTTCAGGCATAC 44 65 306 Antisense
CCTTCTACAGTCCCAGTTAAACAGC 216 267 336 Antisense
GGAAAACGTAAGCCGAGCTCTCACC 587 527 387 Antisense
CATCACTCTCCCCAATGGGGCGACT 635 209 449 Antisense
CCCGAACTCCCTGAACATGCAGAAG 74 259 495 Antisense
CACCGGCCATCAGATCTATCAGCTG 404 201 540 Antisense
AGCAAACCAAGTACCTAGCCGGAGC 429 71 578 Antisense
TAGCCGGAGCAGATCGTGCACAGCT 97 651 593 Antisense
GAAGGAAGCGGCCGACAATGCACTG 628 333 690 Antisense
AAACGTGGTGCCAGCGGCGACAAGT 255 127 718 Antisense
Sequence Source Affymetrix Proprietary Database