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[192686_at] ribosomal protein S23

Description F28D1.7 /REP_DB=WormBase Gene ID /WP=CE05747 /GEN=rps-23 /TR=SW:Q19877 /GB=CAA94601.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=ribosomal protein S23
Cluster 6grp_highest_10_10 > 16      6grp_high1_10_10 > 50      4grp_highest_8_8 > 14      4grp_high_8_8 > 15      6grp_highest_nonorm > 09      6grp_total > 51      4grp_total > 09      6grp_highest_sub > 03_04      6grp_cgc > 93      6grp_high1_sub > 03_04      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18283
1 2 3 4 range
A 26394
(-3)
P 		29939.3
(-1.6)
P 		32929.2
(-0.4)
P 		41208.4
(3)
P 		14814
B 28591.3
(-1)
P 		26175.6
(-3)
P 		28910.7
(-0.8)
P 		33597.9
(3)
P 		7422
C 22999.4
(-3)
P 		25839.9
(-2.1)
P 		24868.5
(-2.4)
P 		41282.2
(3)
P 		18283
avr 25994.9
(-3) 		27318.3
(-2.4) 		28902.8
(-1.6) 		38696.2
(3) 		12701

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8452
1 2 3 4 5 6 range
A 25671.5
(0.5)
P 		23616.2
(-1.5)
P 		26809.1
(1.5)
P 		28386.5
(3)
P 		21982
(-3)
P 		24452.9
(-0.7)
P 		6405
B 22403.5
(0.1)
P 		23419
(1.4)
P 		24723.8
(3)
P 		23451.4
(1.4)
P 		20461.1
(-2.3)
P 		19934.2
(-3)
P 		4790
C 21103.3
(-2.8)
P 		24271.7
(0.1)
P 		27391.1
(3)
P 		27021.1
(2.7)
P 		22411.3
(-1.6)
P 		20835.4
(-3)
P 		6556
avr 23059.4
(-1.2) 		23769
(-0.2) 		26308
(3) 		26286.3
(3) 		21618.1
(-3) 		21740.8
(-2.8) 		4690
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3578
1 2 3 4 range
A 9610.1
(3)
P 		6499
(-2.2)
P 		8608.3
(1.3)
P 		6032.1
(-3)
P 		3578
B 9117.5
(3)
P 		6464.8
(-3)
P 		6699.3
(-2.5)
P 		7159.7
(-1.4)
P 		2653
C 7613.4
(-0.7)
P 		7429.1
(-1.4)
P 		8667.5
(3)
P 		6960.8
(-3)
P 		1707
avr 8780.3
(3) 		6797.6
(-2.8) 		7991.7
(0.7) 		6717.5
(-3) 		2063

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3667
1 2 3 4 5 6 range
A 4732.3
(-3)
P 		8399.1
(3)
P 		5838.5
(-1.2)
P 		7199.5
(1)
P 		6633.2
(0.1)
P 		5953.5
(-1)
P 		3667
B 7795.3
(1.7)
P 		7795.2
(1.7)
P 		6003.7
(-3)
P 		6211.5
(-2.5)
P 		8313.1
(3)
P 		7433.4
(0.7)
P 		2309
C 7822.1
(3)
P 		7406
(2)
P 		6971.5
(0.9)
P 		5434
(-3)
P 		7252
(1.6)
P 		6974.8
(0.9)
P 		2388
avr 6783.2
(-1.1) 		7866.8
(3) 		6271.2
(-3) 		6281.7
(-3) 		7399.4
(1.2) 		6787.2
(-1.1) 		1596
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192686_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9029
Sequence Type Exemplar sequence
Representative Public ID F28D1.7 NCBI
Target Description F28D1.7 /REP_DB=WormBase Gene ID /WP=CE05747 /GEN=rps-23 /TR=SW:Q19877 /GB=CAA94601.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=ribosomal protein S23
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_069964(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069964 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-23) (rps-23) mRNA, complete cds. 11/11 A 
SNAP00000029698 ENSEMBL cdna:SNAP chromosome:CEL140:IV:12390312:12391017:-1 11/11 None
GENEFINDER00000029704 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:12387385:12391017:-1 11/11 None
F28D1.7.2 ENSEMBL cdna:known chromosome:CEL140:IV:12390223:12391026:-1 gene:F28D1.7 11/11 A 
F28D1.7.1 ENSEMBL cdna:known chromosome:CEL140:IV:12390223:12391022:-1 gene:F28D1.7 11/11 A 
F28D1.7.3 ENSEMBL cdna:known chromosome:CEL140:IV:12390267:12391024:-1 gene:F28D1.7 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:12390317-12391023(-) 100.0 100.0
Public Domain and Genome References
Gene Title ribosomal protein S23
Gene Symbol rps-23
Ensembl F28D1.7
Entrez Gene 178188 Entrez gene
SwissProt Q19877 EMBL-EBI
WormBase CE05747 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:258712_S_AT 40S ribosomal protein S23 (RPS23A) at
CANINE:1583181_S_AT similar to ribosomal protein S23 cfa
CANINE_2:CFA.4481.1.A1_S_AT similar to ribosomal protein S23 cfa
DROSOPHILA_2:1638832_AT Ribosomal protein S23 dm
DROSGENOME1:153352_AT Ribosomal protein S23 dm
CHICKEN:GGA.4516.1.S1_A_AT similar to ribosomal protein S23 gga
HG-U95AV2:347_S_AT ribosomal protein S23 hs
HC-G110:347_S_AT ribosomal protein S23 hs
HG-U133_PLUS_2:200926_AT ribosomal protein S23 hs
HG-U133A:200926_AT ribosomal protein S23 hs
HG-FOCUS:200926_AT ribosomal protein S23 hs
HG-U133A_2:200926_AT ribosomal protein S23 hs
HU35KSUBB:RC_AA134112_AT ribosomal protein S23 hs
HU35KSUBC:RC_N73091_AT ribosomal protein S23 hs
HUGENEFL:D14530_AT ribosomal protein S23 hs
U133_X3P:G4506700_3P_AT ribosomal protein S23 hs
U133_X3P:HS.107187.2.S1_3P_AT ribosomal protein S23 hs
HG-U133_PLUS_2:227722_AT ribosomal protein S23 hs
HG-U133B:227722_AT ribosomal protein S23 hs
HG-U95C:50961_AT ribosomal protein S23 hs
HG-U95D:74562_F_AT ribosomal protein S23 hs
HG-U95E:75201_F_AT ribosomal protein S23 hs
MG-U74AV2:96358_AT ribosomal protein S23 mm
MU11KSUBA:AA521931_AT ribosomal protein S23 mm
MOE430A:1460175_AT ribosomal protein S23 mm
MOUSE430A_2:1460175_AT ribosomal protein S23 mm
MOUSE430_2:1460175_AT ribosomal protein S23 mm
RG-U34A:RC_AI013853_AT ribosomal protein S23 rn
RAE230A:1370242_AT ribosomal protein S23 rn
RAT230_2:1370242_AT ribosomal protein S23 rn
YEAST_2:1772156_S_AT Ribosomal protein 28 (rp28) of the small (40S) ribosomal subunit, required for translational accuracy; nearly identical to Rps23Bp and similar to E. coli S12 and rat S23 ribosomal proteins; deletion of both RPS23A and RPS23B is lethal Sc
YEAST_2:1777955_AT Ribosomal protein 28 (rp28) of the small (40S) ribosomal subunit, required for translational accuracy; nearly identical to Rps23Bp and similar to E. coli S12 and rat S23 ribosomal proteins; deletion of both RPS23A and RPS23B is lethal Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6412 protein biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5622 intracellular inferred from electronic annotation QuickGO AmiGO
5840 ribosome inferred from electronic annotation QuickGO AmiGO
15935 small ribosomal subunit inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3735 structural constituent of ribosome inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA94603 Hypothetical protein F28D1.8 [Caenorhabditis elegans] ref|NP_502364.1| F28D1.8 [Caenorhabditis elegans] 1.0E-114
blast CAA94601 Hypothetical protein F28D1.7 [Caenorhabditis elegans] ref|NP_502365.1| Ribosomal Protein, Small subunit family member (rps-23) [Caenorhabditis elegans] sp|Q19877|RS23_CAEEL 40S ribosomal protein S23 emb|CAE59851.1| Hypothetical protein CBG03324 [Caenorhabditis briggsae] 4.0E-79
blast CAA94601 Hypothetical protein F28D1.7 [Caenorhabditis elegans] ref|NP_502365.1| Ribosomal Protein, Small subunit family member (rps-23) [Caenorhabditis elegans] sp|Q19877|RS23_CAEEL 40S ribosomal protein S23 emb|CAE59851.1| Hypothetical protein CBG03324 [Caenorhabditis briggsae] 2.0E-77
blast P90707 40S ribosomal protein S23 gb|AAC47632.1| ribosomal protein S23 [Brugia malayi] 7.0E-73
Protein Domains
Database ID Description E-Value
Pfam IPR006032 EMBL-EBI Ribosomal protein S12/S23 2.0E-75
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000029704 1 265-287
Sequence
Target Sequence 
>C. ELEGANS:192686_AT
agccgaagggactctgcacggctcgcaagctcaagactcatcgtcaagagcaaagatgga
acgataagagatacaagaaggctcacattggaactcgctggaagtctaacccattcggag
gagcttctcacgccaagggaatcgttcttgaaaagatcggtgtcgaagctaagcagccta
actctgctatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCCGAAGGGACTCTGCACGGCTCG 440 81 20 Antisense
TCGCAAGCTCAAGACTCATCGTCAA 406 601 42 Antisense
AAGACTCATCGTCAAGAGCAAAGAT 664 151 52 Antisense
AGAAGGCTCACATTGGAACTCGCTG 479 75 95 Antisense
GGAACTCGCTGGAAGTCTAACCCAT 597 529 109 Antisense
TCGCTGGAAGTCTAACCCATTCGGA 496 593 114 Antisense
TAACCCATTCGGAGGAGCTTCTCAC 161 635 126 Antisense
GAGCTTCTCACGCCAAGGGAATCGT 292 389 140 Antisense
GGGAATCGTTCTTGAAAAGATCGGT 556 493 156 Antisense
GATCGGTGTCGAAGCTAAGCAGCCT 121 419 174 Antisense
AGCTAAGCAGCCTAACTCTGCTATC 357 79 186 Antisense
Sequence Source Affymetrix Proprietary Database