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[173407_s_at]

Description AV181915_rc /REP_DB=TREMBL Accession /GB=AV181915 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk627a7 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 24      6grp_high1_10_10 > 30      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 18      6grp_total > 43      4grp_total > 17      6grp_cgc > 81      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_rule_based > S3      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14290
1 2 3 4 range
A 21018.3
(-3)
P 		26415.6
(-0.5)
P 		26286
(-0.5)
P 		33814
(3)
P 		12796
B 21394
(-3)
P 		23446.4
(-1.6)
P 		26356.6
(0.4)
P 		30092.2
(3)
P 		8698
C 20549.6
(-3)
P 		21829.7
(-2.5)
P 		21714.5
(-2.5)
P 		34840
(3)
P 		14290
avr 20987.3
(-3) 		23897.2
(-1.5) 		24785.7
(-1.1) 		32915.4
(3) 		11928

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7244
1 2 3 4 5 6 range
A 18937.6
(0.6)
P 		17315.6
(-0.8)
P 		21590.9
(3)
P 		17005.7
(-1.1)
P 		14841
(-3)
P 		17529.8
(-0.6)
P 		6750
B 18265.1
(0.6)
P 		18403.7
(0.7)
P 		20908.8
(3)
P 		14928.3
(-2.5)
P 		14346.8
(-3)
P 		15481.9
(-2)
P 		6562
C 16466.1
(-1.2)
P 		18211.5
(1.8)
P 		18932.9
(3)
P 		16298.5
(-1.5)
P 		16844.8
(-0.6)
P 		15422.5
(-3)
P 		3510
avr 17889.6
(-0) 		17976.9
(0.1) 		20477.5
(3) 		16077.5
(-2.1) 		15344.2
(-3) 		16144.7
(-2.1) 		5133
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2703
1 2 3 4 range
A 7652.8
(3)
P 		5734.1
(-1.3)
P 		6871.7
(1.3)
P 		4949.7
(-3)
P 		2703
B 6822.4
(3)
P 		5790.7
(-3)
P 		6107.4
(-1.2)
P 		6412.7
(0.6)
P 		1032
C 6802.5
(0.3)
P 		6276.2
(-1.6)
P 		7568.2
(3)
P 		5874.6
(-3)
P 		1694
avr 7092.6
(3) 		5933.7
(-2.2) 		6849.1
(1.9) 		5745.7
(-3) 		1347

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3078
1 2 3 4 5 6 range
A 3491
(-3)
P 		6158.3
(3)
P 		4702
(-0.3)
P 		4313.1
(-1.2)
P 		4478.4
(-0.8)
P 		4268
(-1.3)
P 		2667
B 6355.4
(3)
P 		6125.8
(2.4)
P 		5077.3
(-0.2)
P 		3954
(-3)
P 		5828.9
(1.7)
P 		5773.1
(1.5)
P 		2401
C 6103.3
(3)
P 		5556.9
(1.8)
P 		4818.7
(0.3)
P 		3277.6
(-3)
P 		5450.7
(1.6)
P 		5162.8
(1)
P 		2826
avr 5316.6
(1.2) 		5947
(3) 		4866
(-0.1) 		3848.2
(-3) 		5252.7
(1) 		5068
(0.5) 		2099
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173407_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27645
Sequence Type Exemplar sequence
Representative Public ID AV181915 NCBI
Target Description AV181915_rc /REP_DB=TREMBL Accession /GB=AV181915 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk627a7 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript 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:13239629-13240167(-) 89.68 89.68
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:173407_S_AT
tgacaccatcatcaagatcgccagaatcatgagaccaagatcgatggccaagaaacttga
aggaaccgtcaaggagatccttggaacagcccaatccgttggatgcacaattgatggaca
acacccacacgacatcatcgagtcgatcgccaatggagagatcgagatcccag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGACACCATCATCAAGATCGCCAGA 21 573 114 Antisense
AGATCGCCAGAATCATGAGACCAAG 494 65 128 Antisense
ATGAGACCAAGATCGATGGCCAAGA 263 45 142 Antisense
GAAGGAACCGTCAAGGAGATCCTTG 607 333 172 Antisense
GGAGATCCTTGGAACAGCCCAATCC 461 517 186 Antisense
GAACAGCCCAATCCGTTGGATGCAC 583 347 197 Antisense
AATCCGTTGGATGCACAATTGATGG 247 167 206 Antisense
AATTGATGGACAACACCCACACGAC 380 179 222 Antisense
ACACCCACACGACATCATCGAGTCG 410 109 234 Antisense
TCATCGAGTCGATCGCCAATGGAGA 561 621 248 Antisense
GCCAATGGAGAGATCGAGATCCCAG 589 277 262 Antisense
Sequence Source Affymetrix Proprietary Database