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[172892_x_at] 40S ribosomal protein

Description F53A3.3 /REP_DB=WormBase Gene ID /WP=CE10884 /GEN=rps-22 /TR=O17218 /GB=AAB70989.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=40S ribosomal protein
Cluster 6grp_highest_10_10 > 43      6grp_high1_10_10 > 34      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 08      6grp_total > 11      4grp_total > 25      6grp_highest_sub > 02      6grp_cgc > 53      6grp_high1_sub > 02      6grp_cgc_sub > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14268
1 2 3 4 range
A 19614.2
(-3)
P 		29248.2
(3)
P 		26310.5
(1.2)
P 		27936.4
(2.2)
P 		9634
B 23914.4
(-1.8)
P 		22660.2
(-3)
P 		25052.8
(-0.7)
P 		28783.9
(3)
P 		6124
C 19702
(-3)
P 		21870.1
(-2.1)
P 		21413
(-2.3)
P 		33882.1
(3)
P 		14180
avr 21076.9
(-3) 		24592.8
(-0.7) 		24258.8
(-0.9) 		30200.8
(3) 		9124

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4694
1 2 3 4 5 6 range
A 20155.9
(2.9)
P 		20230.4
(3)
P 		18515.3
(0.6)
P 		19135.5
(1.5)
P 		15919.1
(-3)
P 		19072.3
(1.4)
P 		4311
B 15773.7
(-2.7)
P 		19606.2
(3)
P 		16305
(-1.9)
P 		16827.5
(-1.1)
P 		15748
(-2.7)
P 		15536.5
(-3)
P 		4070
C 17665.1
(-0)
P 		19643.4
(3)
P 		18343.3
(1)
P 		15751.1
(-3)
P 		18972.5
(2)
P 		16592.7
(-1.7)
P 		3892
avr 17864.9
(-1) 		19826.7
(3) 		17721.2
(-1.3) 		17238
(-2.3) 		16879.9
(-3) 		17067.2
(-2.6) 		2947
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3537
1 2 3 4 range
A 7141.5
(3)
P 		6349
(1.4)
P 		6878.1
(2.5)
P 		4089.3
(-3)
P 		3052
B 7626.1
(3)
P 		5596.5
(-3)
P 		5805.3
(-2.4)
P 		6133.9
(-1.4)
P 		2030
C 6521.9
(-0.2)
P 		6287.8
(-1)
P 		7463.1
(3)
P 		5713.1
(-3)
P 		1750
avr 7096.5
(3) 		6077.8
(-0.4) 		6715.5
(1.7) 		5312.1
(-3) 		1784

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4027
1 2 3 4 5 6 range
A 3715.6
(-3)
P 		7194.9
(3)
P 		4032.2
(-2.5)
P 		4853.2
(-1)
P 		4803.7
(-1.1)
P 		4643.5
(-1.4)
P 		3479
B 5488.5
(0.6)
P 		6526.1
(3)
P 		3959.4
(-3)
P 		4457
(-1.8)
P 		6398.2
(2.7)
P 		5793.5
(1.3)
P 		2567
C 6547.7
(3)
P 		5993.8
(2)
P 		4668.7
(-0.3)
P 		3167.6
(-3)
P 		6139.2
(2.3)
P 		5554.5
(1.2)
P 		3380
avr 5250.6
(-0.3) 		6571.6
(3) 		4220.1
(-2.8) 		4159.3
(-3) 		5780.4
(1) 		5330.5
(-0.1) 		2412
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172892_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8209
Sequence Type Exemplar sequence
Representative Public ID F53A3.3 NCBI
Target Description F53A3.3 /REP_DB=WormBase Gene ID /WP=CE10884 /GEN=rps-22 /TR=O17218 /GB=AAB70989.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=40S ribosomal protein
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_065080(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065080 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-22) (rps-22) mRNA, complete cds. 11/11 A 
SNAP00000027590 ENSEMBL cdna:SNAP chromosome:CEL140:III:1940130:1951358:1 11/11 None
GENEFINDER00000027593 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:1950665:1951358:1 11/11 None
F53A3.3.1 ENSEMBL cdna:known chromosome:CEL140:III:1950524:1951414:1 gene:F53A3.3 11/11 A 
F53A3.3.3 ENSEMBL cdna:known chromosome:CEL140:III:1950643:1951417:1 gene:F53A3.3 11/11 None
F53A3.3.2 ENSEMBL cdna:known chromosome:CEL140:III:1950649:1951421:1 gene:F53A3.3 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
chrIII:1950664-1951358(+) 100.0 100.0
Public Domain and Genome References
Gene Title 40S ribosomal protein
Gene Symbol rps-22
Ensembl F53A3.3
Entrez Gene 175338 Entrez gene
SwissProt O17218 EMBL-EBI
WormBase CE10884 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:247654_AT 40S ribosomal protein S15A (RPS15aF) at
CANINE_2:CFAAFFX.17499.1.S1_X_AT similar to ribosomal protein S15a cfa
CANINE_2:CFAAFFX.22678.1.S1_X_AT similar to ribosomal protein S15a cfa
CANINE_2:CFAAFFX.787.1.S1_AT similar to ribosomal protein S15a cfa
CHICKEN:GGA.1026.2.S1_A_AT similar to Rps15a protein gga
CHICKEN:GGA.1026.2.S1_AT similar to Rps15a protein gga
HG-U133_PLUS_2:200781_S_AT ribosomal protein S15a hs
HG-U133A:200781_S_AT ribosomal protein S15a hs
HG-FOCUS:200781_S_AT ribosomal protein S15a hs
HG-U133A_2:200781_S_AT ribosomal protein S15a hs
HG-U95AV2:34316_AT ribosomal protein S15a hs
HG-U95AV2:34317_G_AT ribosomal protein S15a hs
HU35KSUBC:RC_AA411682_AT ribosomal protein S15a hs
HUGENEFL:X62691_AT ribosomal protein S15a hs
U133_X3P:G4506688_3P_A_AT ribosomal protein S15a hs
U133_X3P:HS.2953.1.S1_3P_AT ribosomal protein S15a hs
HG-U133_PLUS_2:229882_AT ribosomal protein S15a hs
HG-U133B:229882_AT ribosomal protein S15a hs
HG-U95B:44303_AT ribosomal protein S15a hs
HG-U95AV2:33021_AT Chromosome 20 open reading frame 19 hs
HG-U133_PLUS_2:215466_AT Chromosome 20 open reading frame 19 hs
HG-U133A_2:215466_AT Chromosome 20 open reading frame 19 hs
HG-U133A:215466_AT Chromosome 20 open reading frame 19 hs
U133_X3P:HS2.434137.1.S1_3P_AT Chromosome 20 open reading frame 19 hs
U133_X3P:HS2.209620.1.S1_3P_S_AT Chromosome 20 open reading frame 19 hs
U133_X3P:HS.134526.0.S1_3P_AT Chromosome 20 open reading frame 19 hs
HG-U133_PLUS_2:1560673_AT Chromosome 20 open reading frame 19 hs
HG-U133_PLUS_2:1569698_S_AT Chromosome 20 open reading frame 19 hs
HG-U95D:70446_AT Chromosome 20 open reading frame 19 hs
HG-U95E:67724_AT Chromosome 20 open reading frame 19 hs
HG-U95D:76775_R_AT Chromosome 20 open reading frame 19 hs
HG-U95E:78946_R_AT Chromosome 20 open reading frame 19 hs
YEAST_2:1776010_AT Protein component of the small (40S) ribosomal subunit; nearly identical to Rps22Bp and has similarity to E. coli S8 and rat S15a ribosomal proteins 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
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 AAB70989 Ribosomal protein, small subunit protein 22 [Caenorhabditis elegans] ref|NP_497481.1| Ribosomal Protein, Small subunit family member (rps-22) [Caenorhabditis elegans] emb|CAE66465.1| Hypothetical protein CBG11742 [Caenorhabditis briggsae] 1.0E-67
blast AAI06350 Unknown (protein for MGC:130892) [Xenopus laevis] gb|AAH97585.1| Unknown (protein for MGC:114789) [Xenopus laevis] gb|AAL54900.1| ribosomal protein S15 isoform [Lapemis hardwickii] 4.0E-60
blast XP_425249 PREDICTED: similar to Rps15a protein [Gallus gallus] 4.0E-60
Protein Domains
Database ID Description E-Value
Pfam IPR000630 EMBL-EBI Ribosomal protein S8 2.4E-53
Pfam IPR000630 EMBL-EBI Ribosomal protein S8 2.4E-53
Sequence
Target Sequence 
>C. ELEGANS:172892_X_AT
acgccatcaacaacgccgagaagcgcggaaagcgtcaggttctcatccgtccagcctcca
aggtcatcgtccgcttcttgaccgtcatgatgaagcacggatacatcggagagttcgaga
tcgtcgacgaccaccgcgccggaaagatcgtcgtcaacctcaccggacgtctcaacaagg
cctccgtcatctccccacgtctcaacatccgtctaaacgatttggagaagtacaccaaca
ccctcctcccatcccgtcagttcggatatctcatccttaccacctccgccggaatcatgg
atcacga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACGCCATCAACAACGCCGAGAAGCG 458 89 47 Antisense
GCCGAGAAGCGCGGAAAGCGTCAGG 672 283 61 Antisense
CGGAAAGCGTCAGGTTCTCATCCGT 240 243 72 Antisense
TCCGCTTCTTGACCGTCATGATGAA 707 595 116 Antisense
GAAGCACGGATACATCGGAGAGTTC 48 341 138 Antisense
AGTTCGAGATCGTCGACGACCACCG 706 63 158 Antisense
CACGTCTCAACATCCGTCTAAACGA 468 199 242 Antisense
TGGAGAAGTACACCAACACCCTCCT 391 547 269 Antisense
CCATCCCGTCAGTTCGGATATCTCA 365 271 295 Antisense
AGTTCGGATATCTCATCCTTACCAC 102 65 305 Antisense
CCTCCGCCGGAATCATGGATCACGA 5 267 329 Antisense
Sequence Source Affymetrix Proprietary Database