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[192434_at] ribosomal protein S11

Description F40F11.1 /REP_DB=WormBase Gene ID /WP=CE05860 /GEN=rps-11 /TR=Q20206 /GB=CAA97792.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=ribosomal protein S11
Cluster 6grp_highest_10_10 > 35      6grp_high1_10_10 > 40      4grp_highest_8_8 > 13      4grp_high_8_8 > 30      6grp_highest_nonorm > 19      6grp_total > 52      4grp_total > 25      6grp_highest_sub > 03      6grp_cgc > 82      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13277
1 2 3 4 range
A 21521.4
(-3)
P 		29737.3
(1.1)
P 		27603.2
(0)
P 		33485.6
(3)
P 		11964
B 23737.2
(-3)
P 		24066.4
(-2.5)
P 		27922.8
(2.8)
P 		28030.8
(3)
P 		4294
C 20209.1
(-3)
P 		23612.1
(-0.9)
P 		22093
(-1.9)
P 		30132.5
(3)
P 		9923
avr 21822.6
(-3) 		25805.3
(-0.3) 		25873
(-0.2) 		30549.6
(3) 		8727

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9802
1 2 3 4 5 6 range
A 21744.8
(3)
P 		18955.7
(-2.2)
P 		21004.2
(1.6)
P 		20953.5
(1.5)
P 		18524.2
(-3)
P 		18602.7
(-2.9)
P 		3221
B 19028.6
(-2.3)
P 		20596
(-1.2)
P 		26977.6
(3)
P 		19717.3
(-1.8)
P 		17927.5
(-3)
P 		20230.7
(-1.5)
P 		9050
C 17175.7
(-3)
P 		22273.1
(3)
P 		20442
(0.8)
P 		22250.4
(3)
P 		17418.9
(-2.7)
P 		17413.6
(-2.7)
P 		5097
avr 19316.4
(-1.3) 		20608.3
(0.3) 		22807.9
(3) 		20973.7
(0.7) 		17956.9
(-3) 		18749
(-2) 		4851
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2934
1 2 3 4 range
A 7835.9
(3)
P 		6455.2
(0.2)
P 		7216
(1.7)
P 		4901.6
(-3)
P 		2934
B 7569.6
(3)
P 		5943.8
(-3)
P 		6470.4
(-1.1)
P 		5973.4
(-2.9)
P 		1626
C 6689.8
(0.7)
P 		6788.6
(0.9)
P 		7700.1
(3)
P 		5080.8
(-3)
P 		2619
avr 7365.1
(3) 		6395.9
(0.2) 		7128.8
(2.3) 		5318.6
(-3) 		2047

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3535
1 2 3 4 5 6 range
A 4008.5
(-3)
P 		6741.6
(3)
P 		4574.3
(-1.8)
P 		5314.3
(-0.1)
P 		5589.8
(0.5)
P 		4529.2
(-1.9)
P 		2733
B 6621
(0.6)
P 		6855.6
(1.2)
P 		6551
(0.4)
P 		5222.4
(-3)
P 		7283.7
(2.3)
P 		7543.9
(3)
P 		2322
C 6366.3
(1.9)
P 		6796.2
(3)
P 		5202.8
(-1.1)
P 		4474.6
(-3)
P 		5636.5
(0)
P 		5829.4
(0.5)
P 		2322
avr 5665.3
(-0.8) 		6797.8
(3) 		5442.7
(-1.5) 		5003.8
(-3) 		6170
(0.9) 		5967.5
(0.2) 		1794
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192434_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10057
Sequence Type Exemplar sequence
Representative Public ID F40F11.1 NCBI
Target Description F40F11.1 /REP_DB=WormBase Gene ID /WP=CE05860 /GEN=rps-11 /TR=Q20206 /GB=CAA97792.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=ribosomal protein S11
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_069785(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069785 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-11) (rps-11) mRNA, complete cds. 11/11 None
SNAP00000006487 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11602622:11603187:1 11/11 None
GENEFINDER00000006489 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11602622:11603187:1 11/11 None
F40F11.1.1 ENSEMBL cdna:known chromosome:CEL140:IV:11602604:11603253:1 gene:F40F11.1 11/11 None
F40F11.1.3 ENSEMBL cdna:known chromosome:CEL140:IV:11602610:11603255:1 gene:F40F11.1 11/11 None
F40F11.1.2 ENSEMBL cdna:known chromosome:CEL140:IV:11602611:11603255:1 gene:F40F11.1 11/11 None
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:11602627-11603193(+) 100.0 100.0
Public Domain and Genome References
Gene Title ribosomal protein S11
Gene Symbol rps-11
Ensembl F40F11.1
Entrez Gene 178083 Entrez gene
SwissProt Q20206 EMBL-EBI
WormBase CE05860 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:17425_AT 40S ribosomal protein S11 (RPS11B) at
ATH1-121501:253598_AT 40S ribosomal protein S11 (RPS11B) at
CANINE:1583112_AT Ribosomal protein S11 cfa
CANINE_2:CFA.1272.1.A1_S_AT Ribosomal protein S11 cfa
CANINE_2:CFA.6195.1.A1_S_AT Ribosomal protein S11 cfa
CANINE_2:CFA.6195.1.A1_X_AT Ribosomal protein S11 cfa
CANINE_2:CFA.1272.2.A1_AT Ribosomal protein S11 cfa
CANINE:1583397_X_AT Ribosomal protein S11 cfa
CANINE:1583396_S_AT Ribosomal protein S11 cfa
CANINE:1589169_X_AT Ribosomal protein S11 cfa
CANINE:1589675_X_AT Ribosomal protein S11 cfa
CANINE:1595954_AT Ribosomal protein S11 cfa
CANINE:1601209_AT Ribosomal protein S11 cfa
CANINE:1603048_AT Ribosomal protein S11 cfa
DROSOPHILA_2:1630252_AT Ribosomal protein S11 dm
DROSOPHILA_2:1639036_AT Ribosomal protein S11 dm
DROSOPHILA_2:1638068_A_AT Ribosomal protein S11 dm
DROSGENOME1:147067_AT Ribosomal protein S11 dm
CHICKEN:GGA.9384.1.S1_AT ribosomal protein S11 gga
PLASMODIUM_ANOPHELES:200031_S_AT ribosomal protein S11 hs
HG-U133_PLUS_2:200031_S_AT ribosomal protein S11 hs
HG-FOCUS:200031_S_AT ribosomal protein S11 hs
HG-U133A:200031_S_AT ribosomal protein S11 hs
HG-U133B:200031_S_AT ribosomal protein S11 hs
HG-U133A_2:200031_S_AT ribosomal protein S11 hs
U133_X3P:200031_S_AT ribosomal protein S11 hs
HG-U95AV2:32330_AT ribosomal protein S11 hs
HUGENEFL:X06617_AT ribosomal protein S11 hs
U133_X3P:G4506680_3P_A_AT ribosomal protein S11 hs
HG-U133A_2:213350_AT Ribosomal protein S11 hs
HG-U133_PLUS_2:213350_AT Ribosomal protein S11 hs
HG-U133A:213350_AT Ribosomal protein S11 hs
HU35KSUBD:RC_AA169182_AT Ribosomal protein S11 hs
U133_X3P:HS.182740.1.A1_3P_AT Ribosomal protein S11 hs
MG-U74AV2:94767_AT ribosomal protein S11 mm
MOE430A:1424000_A_AT ribosomal protein S11 mm
MOUSE430A_2:1424000_A_AT ribosomal protein S11 mm
MOUSE430_2:1424000_A_AT ribosomal protein S11 mm
MU19KSUBB:TC32074_R_AT Ribosomal protein S11 (Rps11), mRNA mm
MU19KSUBB:TC32074_S_AT Ribosomal protein S11 (Rps11), mRNA mm
MU19KSUBB:TC33495_AT Ribosomal protein S11 (Rps11), mRNA mm
RG-U34A:K03250_AT ribosomal protein S11 rn
RAE230A:1367630_AT ribosomal protein S11 rn
RAT230_2:1367630_AT ribosomal protein S11 rn
YEAST_2:1774802_AT Protein component of the small (40S) ribosomal subunit; identical to Rps11Bp and has similarity to E. coli S17 and rat S11 ribosomal proteins Sc
YEAST_2:1779218_S_AT Protein component of the small (40S) ribosomal subunit; identical to Rps11Bp and has similarity to E. coli S17 and rat S11 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 CAA97792 Hypothetical protein F40F11.1 [Caenorhabditis elegans] ref|NP_502186.1| Ribosomal Protein, Small subunit family member (rps-11) [Caenorhabditis elegans] 1.0E-79
blast CAE62092 Hypothetical protein CBG06118 [Caenorhabditis briggsae] 3.0E-79
Protein Domains
Database ID Description E-Value
Pfam IPR000266 EMBL-EBI Ribosomal protein S17 4.8E-38
Sequence
Target Sequence 
>C. ELEGANS:192434_AT
aagggcctttttgaagcagccaacggtcaaccttaacaacaaggcccgtatccttgctgg
atctaagaagactccacgttacattcgtgaggtcggactcggattcaaggctccacgtga
tgccgtcgagggaacctacatcgacaagaagtgcccatgggccggaaacgtcccaatccg
cggaatgatcctcactggagtcgtcctcaagaacaagatgacaagaaccatcgtcgttcg
tcgtgactaccttcactacatcaagaagtaccgtcgttacgagaagagacataagaacgt
gccagctcactgct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGGGCCTTTTTGAAGCAGCCAACG 651 149 30 Antisense
GCAGCCAACGGTCAACCTTAACAAC 623 295 45 Antisense
AACAAGGCCCGTATCCTTGCTGGAT 350 135 67 Antisense
GGATCTAAGAAGACTCCACGTTACA 669 511 88 Antisense
GACTCCACGTTACATTCGTGAGGTC 325 371 99 Antisense
GAGGTCGGACTCGGATTCAAGGCTC 355 401 118 Antisense
ATTCAAGGCTCCACGTGATGCCGTC 483 5 132 Antisense
GTGATGCCGTCGAGGGAACCTACAT 497 483 146 Antisense
GAACCTACATCGACAAGAAGTGCCC 397 345 161 Antisense
GAAGTGCCCATGGGCCGGAAACGTC 620 335 177 Antisense
CATAAGAACGTGCCAGCTCACTGCT 301 211 319 Antisense
Sequence Source Affymetrix Proprietary Database