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[193406_s_at]

Description W09G3.3 /REP_DB=WormBase Gene ID /WP=CE19021 /CHR=1 /FEA=Sanger Annotation /DEF=Regulator of chromosome condensation (RCC1) (HINXTON) TR:O18187 protein_id:CAB04954.1
Cluster 6grp_highest_10_10 > 28      6grp_high1_10_10 > 72      4grp_highest_8_8 > 25      4grp_high_8_8 > 60      6grp_highest_nonorm > 71      6grp_total > 73      4grp_total > 60      6grp_highest_sub > 04      6grp_high1_sub > 04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 165
1 2 3 4 range
A 212.3
(-1.4)
P 		314.7
(3)
P 		262.2
(0.7)
P 		176.2
(-3)
P 		139
B 231.7
(-0.7)
P 		186.6
(-3)
P 		303.1
(3)
P 		194.4
(-2.6)
P 		117
C 292.4
(3)
P 		244.4
(1)
P 		220.6
(-0)
P 		149.6
(-3)
P 		143
avr 245.5
(1.9) 		248.6
(2.1) 		262
(3) 		173.4
(-3) 		89

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 157
1 2 3 4 5 6 range
A 333.6
(-0.4)
P 		287.2
(-3)
P 		392.7
(3)
P 		307.6
(-1.8)
P 		300.2
(-2.3)
P 		288.2
(-2.9)
P 		106
B 269.2
(-3)
P 		272.8
(-2.8)
P 		311.9
(-1.2)
P 		295.3
(-1.9)
P 		409.4
(3)
P 		318.1
(-0.9)
P 		140
C 274.3
(-2)
P 		252.8
(-3)
P 		359.4
(1.8)
P 		384.9
(3)
P 		339.8
(1)
P 		297.7
(-1)
P 		132
avr 292.4
(-1.5) 		270.9
(-3) 		354.7
(3) 		329.3
(1.2) 		349.8
(2.6) 		301.3
(-0.8) 		84
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 72
1 2 3 4 range
A 77.3
(3)
P 		68.3
(2)
P 		68.5
(2)
P 		25.8
(-3)
P 		52
B 73.9
(3)
P 		46.1
(-2.1)
P 		70.2
(2.3)
P 		41.4
(-3)
P 		33
C 96.8
(3)
P 		70.3
(0.8)
P 		76.9
(1.3)
P 		25.2
(-3)
P 		72
avr 82.7
(3) 		61.6
(0.6) 		71.9
(1.8) 		30.8
(-3) 		52

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 105
1 2 3 4 5 6 range
A 61.5
(-3)
P 		102.2
(3)
P 		85.5
(0.5)
P 		78
(-0.6)
P 		90.6
(1.3)
P 		70.2
(-1.7)
P 		41
B 93.7
(-1.8)
P 		90.8
(-2)
P 		75.7
(-3)
P 		78.2
(-2.8)
P 		166.3
(3)
P 		118.6
(-0.2)
P 		91
C 101.7
(1.5)
P 		77.1
(-3)
P 		91.5
(-0.4)
P 		77.4
(-2.9)
P 		110
(3)
P 		99.6
(1.1)
P 		33
avr 85.6
(-2) 		90
(-1.4) 		84.2
(-2.1) 		77.9
(-3) 		122.3
(3) 		96.1
(-0.5) 		44
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193406_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2467
Sequence Type Exemplar sequence
Representative Public ID W09G3.3 NCBI
Target Description W09G3.3 /REP_DB=WormBase Gene ID /WP=CE19021 /CHR=1 /FEA=Sanger Annotation /DEF=Regulator of chromosome condensation (RCC1) (HINXTON) TR:O18187 protein_id:CAB04954.1
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_001026500(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026500 NCBI Caenorhabditis elegans W09G3.7a (W09G3.7) mRNA, complete cds. 11/11 None
GENEFINDER00000038398 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:13969129:13977811:1 11/11 None
SNAP00000038376 ENSEMBL cdna:SNAP chromosome:CEL140:I:13973942:13978995:1 11/11 None
W09G3.7a ENSEMBL cdna:known chromosome:CEL140:I:13807193:13810330:-1 gene:W09G3.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000042885 4/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
173245 2 1 NM_001026500 193406_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:13667715-13977178(+) 51.69 52.33
chrI:13807123-13813997(-) 100.0 100.0
Public Domain and Genome References
Ensembl W09G3.7
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAD92382 Hypothetical protein W09G3.7a [Caenorhabditis elegans] emb|CAH60790.1| Hypothetical protein W09G3.7a [Caenorhabditis elegans] ref|NP_001021671.1| W09G3.7a [Caenorhabditis elegans] 0.0
blast T26319 hypothetical protein W09G3.3 - Caenorhabditis elegans 0.0
blast CAE68015 Hypothetical protein CBG13628 [Caenorhabditis briggsae] 1.0E-140
blast CAD92382 Hypothetical protein W09G3.7a [Caenorhabditis elegans] emb|CAH60790.1| Hypothetical protein W09G3.7a [Caenorhabditis elegans] ref|NP_001021671.1| W09G3.7a [Caenorhabditis elegans] 1.0E-127
blast T26319 hypothetical protein W09G3.3 - Caenorhabditis elegans 1.0E-127
blast CAD92382 Hypothetical protein W09G3.7a [Caenorhabditis elegans] emb|CAH60790.1| Hypothetical protein W09G3.7a [Caenorhabditis elegans] ref|NP_001021671.1| W09G3.7a [Caenorhabditis elegans] 1.0E-123
blast T26319 hypothetical protein W09G3.3 - Caenorhabditis elegans 1.0E-123
Protein Domains
Database ID Description E-Value
Pfam IPR001357 EMBL-EBI BRCT 7.1E-5
Sequence
Target Sequence 
>C. ELEGANS:193406_S_AT
tcatttccaacctcggagccaataatctcaatccactgctcaatggacacatcatttgtc
gtagattccagtggcgccgtattcagtttcggcctaaacgaggacggccagtgtggaaat
gaggcctacgggatacaatgggaaccggcaaaagttcgaggagacgtggaaggctcgaaa
atccaaaaagtgtcaggatccacggataccctacttgcctgtagtgaaaacggcgaaatt
ttcatttggggacaaacggagtacggtcaagcggctggagcaactgatgagattcaattg
aatacgtcacgccacgtggcaaactcgctgggacctataatttgtgttgatagtacacag
tcatctgttgtggcacgaaattcccgtggaaatgtctttgtttggggtgttggagtactt
ggaatgggtcctgaagcggaatctctcaaaacgcccacgcaaatggatcaaccgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCATTTCCAACCTCGGAGCCAATAA 621 615 964 Antisense
AATAATCTCAATCCACTGCTCAATG 153 171 984 Antisense
ATTTGTCGTAGATTCCAGTGGCGCC 75 19 1017 Antisense
TGGCGCCGTATTCAGTTTCGGCCTA 187 545 1035 Antisense
GTGTCAGGATCCACGGATACCCTAC 485 485 1153 Antisense
GGATACCCTACTTGCCTGTAGTGAA 405 509 1167 Antisense
AACGGAGTACGGTCAAGCGGCTGGA 97 141 1218 Antisense
GAATACGTCACGCCACGTGGCAAAC 448 325 1263 Antisense
GGCAAACTCGCTGGGACCTATAATT 47 529 1281 Antisense
AAGCGGAATCTCTCAAAACGCCCAC 279 149 1397 Antisense
ACGCCCACGCAAATGGATCAACCGC 305 91 1414 Antisense
Sequence Source Affymetrix Proprietary Database