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[175469_s_at]

Description AV199132_rc /REP_DB=TREMBL Accession /GB=AV199132 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk541b12 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 30      4grp_highest_8_8 > 14      4grp_high_8_8 > 14      6grp_highest_nonorm > 08      6grp_total > 42      4grp_total > 17      6grp_cgc > 82      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13439
1 2 3 4 range
A 23125.3
(-3)
P 		28611.9
(-0.4)
P 		26630.1
(-1.3)
P 		35556.1
(3)
P 		12431
B 24370.4
(-3)
P 		25678.3
(-1.9)
P 		27178.1
(-0.7)
P 		31656.6
(3)
P 		7286
C 22743.3
(-2.7)
P 		23353.9
(-2.4)
P 		22117.2
(-3)
P 		33620.7
(3)
P 		11504
avr 23413
(-3) 		25881.4
(-1.5) 		25308.5
(-1.9) 		33611.1
(3) 		10198

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 6236
1 2 3 4 5 6 range
A 19456.4
(1.7)
P 		18571.1
(0.8)
P 		20660.6
(3)
P 		19326.5
(1.6)
P 		14932.8
(-3)
P 		18774.3
(1)
P 		5728
B 18855.3
(0.6)
P 		18541.5
(0.3)
P 		21168.4
(3)
P 		16867.1
(-1.4)
P 		15350.4
(-3)
P 		16069.5
(-2.3)
P 		5818
C 17836.4
(-1.3)
P 		18896.1
(0.3)
P 		20713
(3)
P 		19284.6
(0.9)
P 		17310.9
(-2.1)
P 		16725.2
(-3)
P 		3988
avr 18716
(0.4) 		18669.6
(0.4) 		20847.3
(3) 		18492.7
(0.2) 		15864.7
(-3) 		17189.7
(-1.4) 		4983
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3215
1 2 3 4 range
A 8419.9
(3)
P 		6210.9
(-1.1)
P 		6961.6
(0.3)
P 		5204.7
(-3)
P 		3215
B 7771.5
(3)
P 		6341.9
(-2.8)
P 		6297.8
(-3)
P 		6746
(-1.2)
P 		1474
C 7528.7
(2.5)
P 		6714.4
(0.1)
P 		7708.5
(3)
P 		5669
(-3)
P 		2040
avr 7906.7
(3) 		6422.4
(-1.4) 		6989.3
(0.3) 		5873.2
(-3) 		2034

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3025
1 2 3 4 5 6 range
A 3586.6
(-3)
P 		6604.8
(3)
P 		4499.4
(-1.2)
P 		4901.7
(-0.4)
P 		4506.1
(-1.2)
P 		4571
(-1)
P 		3018
B 6560.7
(3)
P 		6171.7
(1.9)
P 		5140.3
(-1.1)
P 		4467.5
(-3)
P 		6236.7
(2.1)
P 		5992.2
(1.4)
P 		2093
C 6611.2
(3)
P 		5765.8
(1.1)
P 		5271.8
(0.1)
P 		3878.1
(-3)
P 		5601.6
(0.8)
P 		5598.9
(0.8)
P 		2733
avr 5586.2
(1) 		6180.8
(3) 		4970.5
(-1.1) 		4415.8
(-3) 		5448.1
(0.5) 		5387.4
(0.3) 		1765
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175469_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20056
Sequence Type Exemplar sequence
Representative Public ID AV199132 NCBI
Target Description AV199132_rc /REP_DB=TREMBL Accession /GB=AV199132 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk541b12 : 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,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_058660(11), NM_058661(11), NR_002353(11), NR_002354(11), AJ270980(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058660 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-1) (rpl-1) mRNA, complete cds. 11/11 A 
NM_058661 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-1) (rpl-1) mRNA, complete cds. 11/11 None
NR_002353 NCBI Caenorhabditis elegans rpl-1, miscRNA. 11/11 None
NR_002354 NCBI Caenorhabditis elegans rpl-1, miscRNA. 11/11 None
AJ270980 NCBI Caenorhabditis elegans partial mRNA for 60s ribosomal protein L10A (rpl10A gene), strain N2. 11/11 None
SNAP00000005885 ENSEMBL cdna:SNAP chromosome:CEL140:I:2875432:2876303:-1 11/11 None
GENEFINDER00000005901 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:2875432:2876303:-1 11/11 None
Y71F9AL.13a.3 ENSEMBL cdna:known chromosome:CEL140:I:2875393:2876637:-1 gene:Y71F9AL.13 11/11 None
Y71F9AL.13a.1 ENSEMBL cdna:known chromosome:CEL140:I:2875393:2876313:-1 gene:Y71F9AL.13 11/11 A 
Y71F9AL.13a.2 ENSEMBL cdna:known chromosome:CEL140:I:2875393:2876309:-1 gene:Y71F9AL.13 11/11 A 
Y71F9AL.13b.3 ENSEMBL cdna:known chromosome:CEL140:I:2875425:2876309:-1 gene:Y71F9AL.13 11/11 A 
Y71F9AL.13b.5 ENSEMBL cdna:known chromosome:CEL140:I:2875426:2876178:-1 gene:Y71F9AL.13 11/11 None
Y71F9AL.13b.6 ENSEMBL cdna:known chromosome:CEL140:I:2875432:2876308:-1 gene:Y71F9AL.13 11/11 A 
Y71F9AL.13b.7 ENSEMBL cdna:known chromosome:CEL140:I:2875432:2875975:-1 gene:Y71F9AL.13 11/11 None
Y71F9AL.13b.4 ENSEMBL cdna:known chromosome:CEL140:I:2875432:2876309:-1 gene:Y71F9AL.13 11/11 A 
Y71F9AL.13b.1 ENSEMBL cdna:known chromosome:CEL140:I:2875432:2876287:-1 gene:Y71F9AL.13 11/11 A 
Y71F9AL.13b.2 ENSEMBL cdna:known chromosome:CEL140:I:2875432:2876309:-1 gene:Y71F9AL.13 11/11 A 
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
chrI:2875476-2875804(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y71F9AL.13
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF36008 Ribosomal protein, large subunit protein 1, isoform a [Caenorhabditis elegans] ref|NP_491061.1| Ribosomal Protein, Large subunit family member (rpl-1) [Caenorhabditis elegans] sp|Q9N4I4|RL10A_CAEEL 60S ribosomal protein L10a 1.0E-106
blast CAE60592 Hypothetical protein CBG04228 [Caenorhabditis briggsae] 1.0E-104
Protein Domains
Database ID Description E-Value
Pfam IPR002143 EMBL-EBI Ribosomal protein L1 4.9E-89
Pfam IPR002143 EMBL-EBI Ribosomal protein L1 1.4E-64
Pfam IPR002143 EMBL-EBI Ribosomal protein L1 2.3E-73
Sequence
Target Sequence 
>C. ELEGANS:175469_S_AT
tgatcaagcagatcccacgtatcctcggtccaggactcaacaaggccggaaaattccctt
ccgtcgttacccacggagaatctctccaaagcaagagtgacgagatccgcgccaccgtca
agttccagatgaagaaggtgtcgccgtcggtcacgttggactcacccaggaggagcttgt
ctccaacatctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGATCAAGCAGATCCCACGTATCCT 364 565 30 Antisense
CGTATCCTCGGTCCAGGACTCAACA 263 247 47 Antisense
ATCCTCGGTCCAGGACTCAACAAGG 78 37 50 Antisense
CGGTCCAGGACTCAACAAGGCCGGA 546 199 55 Antisense
GTCCAGGACTCAACAAGGCCGGAAA 120 473 57 Antisense
GGAGAATCTCTCCAAAGCAAGAGTG 456 519 104 Antisense
CAAAGCAAGAGTGACGAGATCCGCG 646 191 116 Antisense
GCCACCGTCAAGTTCCAGATGAAGA 57 281 140 Antisense
CACCGTCAAGTTCCAGATGAAGAAG 331 201 142 Antisense
CACCCAGGAGGAGCTTGTCTCCAAC 153 201 192 Antisense
AGGAGGAGCTTGTCTCCAACATCTC 337 57 197 Antisense
Sequence Source Affymetrix Proprietary Database