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[192701_at] Ribosomal protein S3

Description C23G10.3 /REP_DB=WormBase Gene ID /WP=CE01810 /GEN=rps-3 /TR=SW:P48152 /GB=AAF99870.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Ribosomal protein S3
Cluster 6grp_highest_10_10 > 05      6grp_high1_10_10 > 50      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 19      6grp_total > 41      4grp_total > 17      6grp_highest_sub > 03_04      6grp_cgc > 60      6grp_high1_sub > 03_04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16713
1 2 3 4 range
A 23240.7
(-3)
P 		27036.6
(-1.4)
P 		26798.9
(-1.5)
P 		37728.4
(3)
P 		14488
B 24623.8
(-3)
P 		24811.1
(-2.8)
P 		26548.7
(-1.1)
P 		30654.9
(3)
P 		6031
C 21015.8
(-3)
P 		24294.1
(-0.5)
P 		21563.3
(-2.6)
P 		28824.2
(3)
P 		7808
avr 22960.1
(-3) 		25380.6
(-1.5) 		24970.3
(-1.7) 		32402.5
(3) 		9442

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9420
1 2 3 4 5 6 range
A 22962.4
(3)
P 		19637.4
(-1.7)
P 		22648.9
(2.6)
P 		22532.8
(2.4)
P 		18691
(-3)
P 		18891.3
(-2.7)
P 		4271
B 20899
(2.8)
P 		20259.8
(2.1)
P 		21132
(3)
P 		18892.2
(0.7)
P 		18293.2
(0.1)
P 		15293.3
(-3)
P 		5839
C 18374.5
(0.1)
P 		20140.9
(1.2)
P 		22068.7
(2.4)
P 		22987
(3)
P 		19056.9
(0.5)
P 		13567.3
(-3)
P 		9420
avr 20745.3
(1.8) 		20012.7
(1.1) 		21949.9
(3) 		21470.7
(2.5) 		18680.4
(-0.3) 		15917.3
(-3) 		6033
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3602
1 2 3 4 range
A 8461.9
(3)
P 		5868.9
(-2.3)
P 		7005.8
(0)
P 		5522.7
(-3)
P 		2939
B 7852.3
(3)
P 		6127.8
(-3)
P 		6151.9
(-2.9)
P 		6532.6
(-1.6)
P 		1725
C 6956.8
(1.7)
P 		6984.7
(1.8)
P 		7515.5
(3)
P 		4860.2
(-3)
P 		2655
avr 7757
(3) 		6327.1
(-1) 		6891.1
(0.5) 		5638.5
(-3) 		2119

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3199
1 2 3 4 5 6 range
A 4232.9
(-3)
P 		6984
(3)
P 		4932.5
(-1.5)
P 		5714.8
(0.2)
P 		5640.1
(0.1)
P 		4599.4
(-2.2)
P 		2751
B 7271.8
(2.6)
P 		6743.6
(1.3)
P 		5131.5
(-2.7)
P 		5003.9
(-3)
P 		7432.3
(3)
P 		5702.8
(-1.3)
P 		2428
C 6810.6
(3)
P 		6145.6
(1.2)
P 		5616.9
(-0.2)
P 		4622.7
(-2.8)
P 		6166.6
(1.3)
P 		4541.8
(-3)
P 		2269
avr 6105.1
(1.1) 		6624.4
(3) 		5227
(-2) 		5113.8
(-2.4) 		6413
(2.2) 		4948
(-3) 		1676
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192701_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6587
Sequence Type Exemplar sequence
Representative Public ID C23G10.3 NCBI
Target Description C23G10.3 /REP_DB=WormBase Gene ID /WP=CE01810 /GEN=rps-3 /TR=SW:P48152 /GB=AAF99870.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Ribosomal protein S3
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_065948(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065948 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-3) (rps-3) mRNA, complete cds. 11/11 A 
SNAP00000025618 ENSEMBL cdna:SNAP chromosome:CEL140:III:6203035:6207869:1 11/11 None
GENEFINDER00000025643 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6206764:6207869:1 11/11 None
C23G10.3.2 ENSEMBL cdna:known chromosome:CEL140:III:6206740:6207905:1 gene:C23G10.3 11/11 A 
C23G10.3.1 ENSEMBL cdna:known chromosome:CEL140:III:6206740:6207905:1 gene:C23G10.3 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:6206762-6207868(+) 100.0 100.0
Public Domain and Genome References
Gene Title Ribosomal protein S3
Gene Symbol rps-3
Ensembl C23G10.3
Entrez Gene 175879 Entrez gene
SwissProt P48152 EMBL-EBI
WormBase CE01810 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:249700_AT 40S ribosomal protein S3 (RPS3C) at
CANINE:1601516_AT similar to 40S ribosomal protein S3 cfa
CANINE:1599585_AT similar to 40S ribosomal protein S3 cfa
CANINE:1589541_AT similar to 40S ribosomal protein S3 cfa
CANINE:1585903_AT similar to 40S ribosomal protein S3 cfa
CANINE:1583150_S_AT similar to 40S ribosomal protein S3 cfa
CANINE:1583334_AT similar to 40S ribosomal protein S3 cfa
CANINE_2:CFA.1477.1.S1_S_AT similar to 40S ribosomal protein S3 cfa
DROSOPHILA_2:1632269_AT Ribosomal protein S3 dm
DROSGENOME1:143249_AT Ribosomal protein S3 dm
CHICKEN:GGA.4897.1.S1_S_AT ribosomal protein S3 gga
HG-U133_PLUS_2:208692_AT ribosomal protein S3 hs
HG-U133A:208692_AT ribosomal protein S3 hs
HG-FOCUS:208692_AT ribosomal protein S3 hs
HG-U133A_2:208692_AT ribosomal protein S3 hs
HUGENEFL:X55715_AT ribosomal protein S3 hs
U133_X3P:G555940_3P_AT ribosomal protein S3 hs
HG-U95AV2:34645_AT ribosomal protein S3 hs
HG-U95C:63493_AT Ribosomal protein S3 hs
HU35KSUBB:RC_AA044995_AT Ribosomal protein S3 hs
MG-U74AV2:101137_AT ribosomal protein S3 mm
MOUSE430_2:1455600_AT ribosomal protein S3 mm
MOE430B:1455600_AT ribosomal protein S3 mm
MU11KSUBB:X76772_F_AT ribosomal protein S3 mm
MG-U74CV2:168181_I_AT ribosomal protein S3 mm
MOE430A:1435151_A_AT ribosomal protein S3 mm
MOUSE430A_2:1435151_A_AT ribosomal protein S3 mm
MOUSE430_2:1435151_A_AT ribosomal protein S3 mm
MOE430B:1447563_AT ribosomal protein S3 mm
MOUSE430_2:1447563_AT ribosomal protein S3 mm
MG-U74CV2:168976_I_AT Ribosomal protein S3, mRNA (cDNA clone MGC:6565 IMAGE:2811930) mm
MU11KSUBA:AA265222_S_AT Ribosomal protein S3, mRNA (cDNA clone MGC:6565 IMAGE:2811930) mm
MU19KSUBC:TC35885_F_AT Ribosomal protein S3, mRNA (cDNA clone MGC:6565 IMAGE:2811930) mm
MU19KSUBC:TC35886_AT Ribosomal protein S3, mRNA (cDNA clone MGC:6565 IMAGE:2811930) mm
MU19KSUBC:TC35887_AT Ribosomal protein S3, mRNA (cDNA clone MGC:6565 IMAGE:2811930) mm
MU19KSUBC:TC35888_AT Ribosomal protein S3, mRNA (cDNA clone MGC:6565 IMAGE:2811930) mm
MU19KSUBC:TC35889_AT Ribosomal protein S3, mRNA (cDNA clone MGC:6565 IMAGE:2811930) mm
RG-U34A:X51536CDS_G_AT ribosomal protein S3 rn
RG-U34A:X51536CDS_AT ribosomal protein S3 rn
RG-U34B:RC_AI009411_AT ribosomal protein S3 rn
RAE230A:1371299_AT ribosomal protein S3 rn
RAT230_2:1371299_AT ribosomal protein S3 rn
YEAST_2:1772975_AT Protein component of the small (40S) ribosomal subunit, has apurinic/apyrimidinic (AP) endonuclease activity; essential for viability; has similarity to E. coli S3 and rat S3 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
15935 small ribosomal subunit inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
3735 structural constituent of ribosome inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF99870 Ribosomal protein, small subunit protein 3 [Caenorhabditis elegans] ref|NP_498349.1| Ribosomal Protein, Small subunit family member (rps-3) [Caenorhabditis elegans] sp|P48152|RS3_CAEEL 40S ribosomal protein S3 1.0E-129
blast CAE56535 Hypothetical protein CBG24262 [Caenorhabditis briggsae] 1.0E-128
blast CAE56535 Hypothetical protein CBG24262 [Caenorhabditis briggsae] 1.0E-127
Protein Domains
Database ID Description E-Value
Pfam IPR004087 EMBL-EBI KH 5.4E-5
Pfam IPR001351 EMBL-EBI Ribosomal protein S3, C-terminal 9.5E-30
Pfam IPR004087 EMBL-EBI KH 5.4E-5
Pfam IPR001351 EMBL-EBI Ribosomal protein S3, C-terminal 9.5E-30
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000025618 1 24-46
Sequence
Target Sequence 
>C. ELEGANS:192701_AT
gtaccccagccagagctgaggtcatcatcatggcgacccgcacccaaaacgttttgggag
agcgaggacgcagaattaaggagctcacctcggttgtccaaaagagattcggattcgagg
agggatccgtcgagctctacgccgagaaggtttccaacagaggactctgcgctgtcgctc
agtgcgaatccctcagatacaagctcgtcggaggtcttgccgtccgtcgtgcttgctacg
gagttctccgtttcatcatggagtctggagctcaaggagttgaggttatcgtctctggaa
agcttcgtggacagcgtgctaaggccatgaagttcgttgatggactcatgattcactctg
gacacccagtcaacgactacatccaacaagccgtcagacacgttcaactccgtcagggag
tcatcggtatcaaggtcaagatcatgcttccatacgacccacgcggacagaacggaccaa
gaaacgccctcccagaccacgtccaaatcgtcgagccacaagaggaagtccttccaaagg
aaccacacagccagcac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTACCCCAGCCAGAGCTGAGGTCAT 520 457 140 Antisense
TGAGGTCATCATCATGGCGACCCGC 277 567 156 Antisense
AGCTCACCTCGGTTGTCCAAAAGAG 686 77 221 Antisense
TCGAGGAGGGATCCGTCGAGCTCTA 283 603 254 Antisense
GCTCTACGCCGAGAAGGTTTCCAAC 373 273 273 Antisense
GTGCGAATCCCTCAGATACAAGCTC 474 479 321 Antisense
TACAAGCTCGTCGGAGGTCTTGCCG 189 643 337 Antisense
TCGTGCTTGCTACGGAGTTCTCCGT 37 605 366 Antisense
GGTTATCGTCTCTGGAAAGCTTCGT 466 503 423 Antisense
AAAGCTTCGTGGACAGCGTGCTAAG 25 125 438 Antisense
TCCAAAGGAACCACACAGCCAGCAC 116 587 672 Antisense
Sequence Source Affymetrix Proprietary Database