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[173723_s_at]

Description AV198038 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R02F11.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV198038 /WB_GENE_ID=R02F11.4 /WP=CE12502 /CHR=5 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk674c3 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 94      6grp_high1_10_10 > 59      4grp_highest_8_8 > 61      4grp_high_8_8 > 17      6grp_highest_nonorm > 82      6grp_total > 49      4grp_total > 30      6grp_highest_sub > Cu      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 191
1 2 3 4 range
A 383.6
(3)
P 		211.6
(-3)
P 		221.6
(-2.7)
P 		299.7
(0.1)
P 		172
B 302.2
(3)
P 		257.7
(0.4)
P 		198
(-3)
P 		229.7
(-1.2)
P 		104
C 362.1
(3)
P 		225.3
(-1.8)
P 		192.4
(-3)
P 		306.5
(1)
P 		170
avr 349.3
(3) 		231.5
(-1.9) 		204
(-3) 		278.6
(0.1) 		145

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 309
1 2 3 4 5 6 range
A 429.5
(2.3)
P 		335.3
(-0.1)
P 		223
(-3)
P 		249.5
(-2.3)
P 		337.7
(-0.1)
P 		458.5
(3)
P 		236
B 403
(1.4)
P 		337.6
(-0.1)
P 		215.2
(-3)
P 		302.2
(-1)
P 		354.3
(0.3)
P 		470.3
(3)
P 		255
C 461.2
(1.6)
P 		312.4
(-1.6)
P 		249.1
(-3)
P 		256.8
(-2.8)
P 		397.5
(0.2)
P 		524.5
(3)
P 		275
avr 431.2
(1.7) 		328.4
(-0.7) 		229.1
(-3) 		269.5
(-2.1) 		363.2
(0.2) 		484.4
(3) 		255
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 96
1 2 3 4 range
A 139.7
(3)
P 		45.9
(-2.9)
P 		57.9
(-2.1)
P 		43.9
(-3)
P 		96
B 96.4
(3)
P 		63.7
(-0.9)
P 		45.9
(-3)
P 		48.9
(-2.6)
P 		51
C 119.9
(3)
P 		64.8
(-1.8)
P 		67.1
(-1.6)
P 		51.7
(-3)
P 		68
avr 118.7
(3) 		58.1
(-2.2) 		57
(-2.3) 		48.2
(-3) 		71

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 127
1 2 3 4 5 6 range
A 79.2
(-0.4)
P 		119.2
(3)
P 		48.6
(-3)
P 		63.3
(-1.8)
P 		101.9
(1.5)
P 		111.6
(2.4)
P 		71
B 140.2
(1.3)
P 		112.4
(-0.1)
P 		52.2
(-3)
P 		80
(-1.6)
P 		143.9
(1.5)
P 		175.4
(3)
P 		123
C 170.9
(2.8)
P 		95.3
(-0.9)
P 		63.4
(-2.4)
P 		51.6
(-3)
P 		128.6
(0.7)
P 		175.6
(3)
P 		124
avr 130.1
(1.5) 		109
(0.3) 		54.7
(-3) 		65
(-2.4) 		124.8
(1.2) 		154.2
(3) 		100
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173723_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.25673
Sequence Type Exemplar sequence
Representative Public ID AV198038 NCBI
Target Description AV198038 /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=R02F11.4 /5_PRIME_EXT_DB=WormBase Gene ID /GB=AV198038 /WB_GENE_ID=R02F11.4 /WP=CE12502 /CHR=5 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk674c3 : 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_071888(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071888 NCBI Caenorhabditis elegans R02F11.4 (R02F11.4) mRNA, complete cds. 11/11 None
SNAP00000015690 ENSEMBL cdna:SNAP chromosome:CEL140:V:4810917:4818476:-1 11/11 None
GENEFINDER00000015696 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:4810877:4818476:-1 10/11 None
R02F11.4 ENSEMBL cdna:known chromosome:CEL140:V:4810741:4818477:-1 gene:R02F11.4 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:4810917-4818477(-) 99.21 100.0
Public Domain and Genome References
Gene Title
Ensembl R02F11.4
Entrez Gene 178871 Entrez gene
SwissProt O16366 EMBL-EBI
WormBase CE12502 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB65900 Hypothetical protein R02F11.4 [Caenorhabditis elegans] ref|NP_504289.1| R02F11.4 [Caenorhabditis elegans] 0.0
blast CAE64200 Hypothetical protein CBG08830 [Caenorhabditis briggsae] 0.0
blast CAE64200 Hypothetical protein CBG08830 [Caenorhabditis briggsae] 1.0E-129
blast AAH67049 Unknown (protein for MGC:91372) [Mus musculus] ref|NP_083091.1| leucine-rich repeats and IQ motif containing 2 [Mus musculus] dbj|BAE32902.1| unnamed protein product [Mus musculus] dbj|BAB28575.1| unnamed protein product [Mus musculus] 9.0E-21
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.063
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 7.7E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.92
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0026
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.063
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 7.7E-5
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.92
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0026
Sequence
Target Sequence 
>C. ELEGANS:173723_S_AT
tcccctaggctctacacgaagtatttcaactgaaaccgtaatctgctcatctcgaacaga
agtcagtttcacagtggacggaagaagcgaatcgacgccactgccacgtattgattgtgc
tccattagagcgaaaagagcaggagccagagcaacgtcatactccgagtgtcgccgatgt
gacctatgttggtgaagagagcgacggagagctgaaacagaaagtggcgtatttggaaaa
aagtgtcgatgagctgaaaattcaaaatgagaacctgacggctatcaacgatcggctagt
ggatactctggaagaatttaaagccgaacaggcagaaatgtggaaagctattcgaaatat
gatcccgacacctcaaaatgtgattagtaatttcctcgtcgaaaatgaagatggccatca
tgtacatcaagtcagatgggatatgccggcagtgaaggaatttcgaattttcgttgatgg
aaatcagtgtggacagattaaaggaaagaataactcggcaaggattacggatttgacgtc
aaatgaaccgcatactgttcagattcaggccgtcgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCCCCTAGGCTCTACACGAAGTATT 264 597 1276 Antisense
TGAAACCGTAATCTGCTCATCTCGA 353 573 1306 Antisense
GAAGAAGCGAATCGACGCCACTGCC 246 341 1356 Antisense
GCCACTGCCACGTATTGATTGTGCT 402 279 1372 Antisense
GAGCAACGTCATACTCCGAGTGTCG 554 389 1424 Antisense
GTCGCCGATGTGACCTATGTTGGTG 577 475 1445 Antisense
ACCTGACGGCTATCAACGATCGGCT 177 89 1548 Antisense
ACGATCGGCTAGTGGATACTCTGGA 81 93 1563 Antisense
GAAATATGATCCCGACACCTCAAAA 326 363 1629 Antisense
TGTGATTAGTAATTTCCTCGTCGAA 31 555 1654 Antisense
TACTGTTCAGATTCAGGCCGTCGGA 403 647 1828 Antisense
Sequence Source Affymetrix Proprietary Database