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[175533_s_at]

Description AV200380_rc /REP_DB=TREMBL Accession /GB=AV200380 /CHR=4 /FEA=Genomic Cluster /REVCOMP /DEF=Caenorhabditis elegans cDNA clone:yk574d5 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 22      6grp_high1_10_10 > 11      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 19      6grp_total > 23      4grp_total > 17      6grp_highest_sub > De      6grp_cgc > 71      6grp_high1_sub > De      6grp_cgc_sub > 03      6grp_total_sub > Decrease      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17084
1 2 3 4 range
A 24577.3
(-3)
P 		29720.9
(-1)
P 		30635.2
(-0.6)
P 		39763.7
(3)
P 		15186
B 24285
(-3)
P 		27093.5
(-1.3)
P 		26502.5
(-1.7)
P 		34294.1
(3)
P 		10009
C 22679.6
(-3)
P 		25663.6
(-1.8)
P 		24684
(-2.2)
P 		38223.1
(3)
P 		15544
avr 23847.3
(-3) 		27492.7
(-1.4) 		27273.9
(-1.5) 		37427
(3) 		13580

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10257
1 2 3 4 5 6 range
A 27066
(3)
P 		22166.7
(-0.2)
P 		22036.2
(-0.3)
P 		21499.6
(-0.6)
P 		17800.5
(-3)
P 		20577.3
(-1.2)
P 		9266
B 21199.8
(3)
P 		20987.5
(2.7)
P 		20502.5
(2)
P 		19340.9
(0.5)
P 		16855.8
(-2.9)
P 		16809
(-3)
P 		4391
C 20278
(-0.6)
P 		21918.4
(0.8)
P 		24547.8
(3)
P 		21497.3
(0.4)
P 		20647.5
(-0.3)
P 		17443.3
(-3)
P 		7105
avr 22847.9
(3) 		21690.9
(1.5) 		22362.2
(2.4) 		20779.3
(0.3) 		18434.6
(-2.8) 		18276.5
(-3) 		4571
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3128
1 2 3 4 range
A 8948.6
(3)
P 		6451.6
(-1.8)
P 		8008.6
(1.2)
P 		5820.6
(-3)
P 		3128
B 7744.3
(3)
P 		6691.5
(-0.9)
P 		6141.2
(-3)
P 		7308.1
(1.4)
P 		1603
C 7507.6
(-0)
P 		7378.4
(-0.4)
P 		8603.1
(3)
P 		6445
(-3)
P 		2158
avr 8066.8
(3) 		6840.5
(-1.8) 		7584.3
(1.1) 		6524.6
(-3) 		1542

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3561
1 2 3 4 5 6 range
A 4989.4
(-2.6)
P 		7883.6
(3)
P 		4799
(-3)
P 		5452.8
(-1.7)
P 		5371.4
(-1.9)
P 		5009.9
(-2.6)
P 		3085
B 7376.5
(3)
P 		6985.8
(2)
P 		4978.6
(-3)
P 		5122.7
(-2.6)
P 		6848.3
(1.7)
P 		6268
(0.2)
P 		2398
C 7516.2
(3)
P 		6688
(1.4)
P 		6247.8
(0.6)
P 		4323.1
(-3)
P 		6681.2
(1.4)
P 		5839.3
(-0.2)
P 		3193
avr 6627.4
(1.5) 		7185.8
(3) 		5341.8
(-2) 		4966.2
(-3) 		6300.3
(0.6) 		5705.7
(-1) 		2220
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175533_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28227
Sequence Type Exemplar sequence
Representative Public ID AV200380 NCBI
Target Description AV200380_rc /REP_DB=TREMBL Accession /GB=AV200380 /CHR=4 /FEA=Genomic Cluster /REVCOMP /DEF=Caenorhabditis elegans cDNA clone:yk574d5 : 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 identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NR_002385(11), NM_070141(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NR_002385 NCBI Caenorhabditis elegans rpl-12, miscRNA. 11/11 None
NM_070141 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-12) (rpl-12) mRNA, complete cds. 11/11 A 
SNAP00000008999 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13239648:13240529:-1 11/11 None
GENEFINDER00000009017 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13239648:13240529:-1 11/11 None
JC8.3a.2 ENSEMBL cdna:known chromosome:CEL140:IV:13239557:13240753:-1 gene:JC8.3 11/11 A 
JC8.3a.1 ENSEMBL cdna:known chromosome:CEL140:IV:13239557:13240593:-1 gene:JC8.3 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
chrIV:13240082-13240361(-) 100.0 100.0
Public Domain and Genome References
Ensembl JC8.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB05226 Hypothetical protein JC8.3a [Caenorhabditis elegans] ref|NP_502542.1| Ribosomal Protein, Large subunit family member (rpl-12) [Caenorhabditis elegans] gb|AAF65224.1| ribosomal protein L12 [Caenorhabditis briggsae] sp|P61865|RL12_CAEBR 60S ribosomal protein L12 sp|P61866|RL12_CAEEL 60S ribosomal protein L12 emb|CAE58638.1| Hypothetical protein CBG01806 [Caenorhabditis briggsae] 3.0E-89
blast EAA13967 ENSANGP00000019214 [Anopheles gambiae str. PEST] ref|XP_319222.2| ENSANGP00000019214 [Anopheles gambiae str. PEST] 3.0E-71
Protein Domains
Database ID Description E-Value
Pfam IPR000911 EMBL-EBI Ribosomal protein L11 1.3E-20
Pfam IPR000911 EMBL-EBI Ribosomal protein L11 4.9E-20
Sequence
Target Sequence 
>C. ELEGANS:175533_S_AT
gaggagaagtcggagccacctccgctcttgccccaaaggtcggaccacttggattgtctc
caaagaagatcggagaagacatcgccaaggccacccaagactggaagggtcttaaggtca
cctgcaaattgaccatccagaaccgtgttgccaagatcgacgttgtcccatctgctgctt
ccctcatcgtcaaggagctcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGGAGAAGTCGGAGCCACCTCCGC 407 403 19 Antisense
AAGGTCGGACCACTTGGATTGTCTC 64 159 54 Antisense
GGACCACTTGGATTGTCTCCAAAGA 642 521 60 Antisense
TCGGAGAAGACATCGCCAAGGCCAC 131 607 88 Antisense
CCAAGGCCACCCAAGACTGGAAGGG 460 275 103 Antisense
GGAAGGGTCTTAAGGTCACCTGCAA 156 533 121 Antisense
GTCACCTGCAAATTGACCATCCAGA 661 465 135 Antisense
CCAGAACCGTGTTGCCAAGATCGAC 391 273 155 Antisense
GTGTTGCCAAGATCGACGTTGTCCC 321 485 163 Antisense
TTGCCAAGATCGACGTTGTCCCATC 172 701 166 Antisense
CTTCCCTCATCGTCAAGGAGCTCAA 693 219 196 Antisense
Sequence Source Affymetrix Proprietary Database