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[192860_at] 40S ribosomal protein S6

Description Y71A12B.1 /REP_DB=WormBase Gene ID /WP=CE24592 /GEN=rps-6 /TR=Q9NEN6 /GB=CAB81996.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=40S ribosomal protein S6
Cluster 6grp_highest_10_10 > 15      6grp_high1_10_10 > 40      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 09      6grp_total > 51      4grp_total > 17      6grp_highest_sub > 03      6grp_cgc > 93      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 19042
1 2 3 4 range
A 26360.4
(-3)
P 		36093.9
(0.1)
P 		33697.5
(-0.6)
P 		44987.3
(3)
P 		18627
B 27059.6
(-3)
P 		30304.4
(-0.9)
P 		32032.7
(0.2)
P 		36332.9
(3)
P 		9273
C 25945.3
(-3)
P 		28440.2
(-2.2)
P 		26280.7
(-2.9)
P 		44542.6
(3)
P 		18597
avr 26455.1
(-3) 		31612.8
(-1) 		30670.3
(-1.4) 		41954.3
(3) 		15499

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12435
1 2 3 4 5 6 range
A 27538.4
(3)
P 		24245.2
(-0.4)
P 		25150.4
(0.5)
P 		26214
(1.6)
P 		21809.7
(-3)
P 		26601.5
(2)
P 		5729
B 22653.1
(0.4)
P 		23155.5
(1)
P 		25000.9
(3)
P 		23111
(0.9)
P 		19589.9
(-3)
P 		19779.3
(-2.8)
P 		5411
C 21543.9
(-1.1)
P 		24202.1
(0.2)
P 		29951.5
(3)
P 		27860.4
(2)
P 		23333.3
(-0.2)
P 		17516.2
(-3)
P 		12435
avr 23911.8
(-0.1) 		23867.6
(-0.1) 		26700.9
(3) 		25728.5
(1.9) 		21577.6
(-2.7) 		21299
(-3) 		5402
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3013
1 2 3 4 range
A 9597.8
(3)
P 		7835
(-0.5)
P 		8809.2
(1.4)
P 		6585.3
(-3)
P 		3013
B 8629.1
(3)
P 		7484.5
(-2.7)
P 		7422.7
(-3)
P 		7742.6
(-1.4)
P 		1206
C 8588.6
(0.9)
P 		8176.7
(-0.6)
P 		9159.6
(3)
P 		7510.6
(-3)
P 		1649
avr 8938.5
(3) 		7832.1
(-1) 		8463.8
(1.3) 		7279.5
(-3) 		1659

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3546
1 2 3 4 5 6 range
A 5076.5
(-3)
P 		8622.8
(3)
P 		5477.2
(-2.3)
P 		6648.5
(-0.3)
P 		6581.2
(-0.5)
P 		6476.6
(-0.6)
P 		3546
B 7882.2
(2.8)
P 		7707.5
(2.2)
P 		6071
(-3)
P 		6121.3
(-2.8)
P 		7959.1
(3)
P 		7375.6
(1.1)
P 		1888
C 7985.4
(3)
P 		7384.8
(1.5)
P 		7623.2
(2.1)
P 		5602.8
(-3)
P 		7550.3
(1.9)
P 		5863.7
(-2.3)
P 		2383
avr 6981.4
(-0.1) 		7905
(3) 		6390.5
(-2.1) 		6124.2
(-3) 		7363.5
(1.2) 		6572
(-1.5) 		1781
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192860_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.503
Sequence Type Exemplar sequence
Representative Public ID Y71A12B.1 NCBI
Target Description Y71A12B.1 /REP_DB=WormBase Gene ID /WP=CE24592 /GEN=rps-6 /TR=Q9NEN6 /GB=CAB81996.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=40S ribosomal protein S6
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_061034(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061034 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-6) (rps-6) mRNA, complete cds. 11/11 None
SNAP00000038370 ENSEMBL cdna:SNAP chromosome:CEL140:I:13960296:13961263:1 11/11 None
GENEFINDER00000038399 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:13960296:13961263:1 11/11 None
Y71A12B.1.2 ENSEMBL cdna:known chromosome:CEL140:I:13960277:13961312:1 gene:Y71A12B.1 11/11 None
Y71A12B.1.1 ENSEMBL cdna:known chromosome:CEL140:I:13960279:13961312:1 gene:Y71A12B.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
chrI:13960226-13961194(+) 100.0 100.0
Public Domain and Genome References
Gene Title 40S ribosomal protein S6
Gene Symbol rps-6
Ensembl Y71A12B.1
Entrez Gene 173260 Entrez gene
SwissProt Q9NEN6 EMBL-EBI
WormBase CE24592 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:253487_AT 40S ribosomal protein S6 (RPS6A) at
CANINE:1590339_S_AT similar to 40S ribosomal protein S6 cfa
CANINE_2:CFA.10190.1.S1_S_AT similar to 40S ribosomal protein S6 cfa
DROSOPHILA_2:1626924_A_AT Ribosomal protein S6 dm
DROSGENOME1:142791_AT Ribosomal protein S6 dm
CHICKEN:GGA.4389.1.S1_A_AT ribosomal protein S6 gga
HG-U133B:200081_S_AT ribosomal protein S6 hs
PLASMODIUM_ANOPHELES:200081_S_AT ribosomal protein S6 hs
HG-U133A:200081_S_AT ribosomal protein S6 hs
HG-U133_PLUS_2:200081_S_AT ribosomal protein S6 hs
HG-U133A_2:200081_S_AT ribosomal protein S6 hs
HG-FOCUS:200081_S_AT ribosomal protein S6 hs
U133_X3P:200081_S_AT ribosomal protein S6 hs
HG-U133A:201254_X_AT ribosomal protein S6 hs
HG-U133_PLUS_2:201254_X_AT ribosomal protein S6 hs
HG-U133A_2:201254_X_AT ribosomal protein S6 hs
HG-U133_PLUS_2:209134_S_AT ribosomal protein S6 hs
HG-U133A:209134_S_AT ribosomal protein S6 hs
HG-U133A_2:209134_S_AT ribosomal protein S6 hs
HU35KSUBC:RC_D51216_F_AT ribosomal protein S6 hs
HU35KSUBD:RC_D52632_F_AT ribosomal protein S6 hs
HUGENEFL:M77232_RNA1_AT ribosomal protein S6 hs
U133_X3P:G12751054_3P_S_AT ribosomal protein S6 hs
HG-U95AV2:35125_AT ribosomal protein S6 hs
HG-U95E:73063_AT ribosomal protein S6 hs
HG-U95D:73605_F_AT ribosomal protein S6 hs
HG-U133_PLUS_2:238156_AT Ribosomal protein S6 hs
HG-U133B:238156_AT Ribosomal protein S6 hs
HG-U95D:70762_AT Ribosomal protein S6 hs
HG-U95D:91667_AT Ribosomal protein S6 hs
U133_X3P:HS.211198.0.A1_3P_AT Ribosomal protein S6 hs
MOE430A:1416141_A_AT ribosomal protein S6 mm
MOUSE430_2:1416141_A_AT ribosomal protein S6 mm
MOUSE430A_2:1416141_A_AT ribosomal protein S6 mm
MOE430A:1416142_AT ribosomal protein S6 mm
MOUSE430_2:1416142_AT ribosomal protein S6 mm
MOUSE430A_2:1416142_AT ribosomal protein S6 mm
MOUSE430A_2:1435962_AT ribosomal protein S6 mm
MOE430A:1435962_AT ribosomal protein S6 mm
MOUSE430_2:1435962_AT ribosomal protein S6 mm
MOUSE430A_2:1435817_X_AT ribosomal protein S6 mm
MOE430A:1435817_X_AT ribosomal protein S6 mm
MOUSE430_2:1435817_X_AT ribosomal protein S6 mm
MG-U74AV2:101577_AT ribosomal protein S6 mm
MG-U74CV2:135194_AT ribosomal protein S6 mm
MOE430A:1453466_AT ribosomal protein S6 mm
MOUSE430A_2:1453466_AT ribosomal protein S6 mm
MOUSE430_2:1453466_AT ribosomal protein S6 mm
MOE430A:1434377_X_AT ribosomal protein S6 mm
MOUSE430A_2:1434377_X_AT ribosomal protein S6 mm
MOUSE430_2:1434377_X_AT ribosomal protein S6 mm
MOE430A:1454620_X_AT ribosomal protein S6 mm
MOUSE430A_2:1454620_X_AT ribosomal protein S6 mm
MOUSE430_2:1454620_X_AT ribosomal protein S6 mm
MOE430A:1455693_X_AT ribosomal protein S6 mm
MOUSE430A_2:1455693_X_AT ribosomal protein S6 mm
MOUSE430_2:1455693_X_AT ribosomal protein S6 mm
MOE430A:1435816_AT ribosomal protein S6 mm
MOUSE430A_2:1435816_AT ribosomal protein S6 mm
MOUSE430_2:1435816_AT ribosomal protein S6 mm
MOE430A:1437246_X_AT ribosomal protein S6 mm
MOUSE430A_2:1437246_X_AT ribosomal protein S6 mm
MOUSE430_2:1437246_X_AT ribosomal protein S6 mm
MOE430A:1455981_AT ribosomal protein S6 mm
MOUSE430A_2:1455981_AT ribosomal protein S6 mm
MOUSE430_2:1455981_AT ribosomal protein S6 mm
MOE430B:1442044_AT Ribosomal protein S6, mRNA (cDNA clone MGC:6573 IMAGE:3481640) mm
MOUSE430_2:1442044_AT Ribosomal protein S6, mRNA (cDNA clone MGC:6573 IMAGE:3481640) mm
MG-U74CV2:169270_AT Ribosomal protein S6, mRNA (cDNA clone MGC:6573 IMAGE:3481640) mm
MG-U74CV2:169640_I_AT Ribosomal protein S6, mRNA (cDNA clone MGC:6573 IMAGE:3481640) mm
RG-U34A:M29358_G_AT ribosomal protein S6 rn
RG-U34A:M29358_AT ribosomal protein S6 rn
RG-U34C:RC_AI178582_S_AT ribosomal protein S6 rn
RAE230A:1367573_AT ribosomal protein S6 rn
RAT230_2:1367573_AT ribosomal protein S6 rn
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 CAB81996 Hypothetical protein Y71A12B.1 [Caenorhabditis elegans] ref|NP_493435.1| Ribosomal Protein, Small subunit family member (rps-6) [Caenorhabditis elegans] sp|Q9NEN6|RS6_CAEEL 40S ribosomal protein S6 1.0E-128
blast CAE67995 Hypothetical protein CBG13605 [Caenorhabditis briggsae] 1.0E-121
blast CAB81996 Hypothetical protein Y71A12B.1 [Caenorhabditis elegans] ref|NP_493435.1| Ribosomal Protein, Small subunit family member (rps-6) [Caenorhabditis elegans] sp|Q9NEN6|RS6_CAEEL 40S ribosomal protein S6 1.0E-120
blast CAE67995 Hypothetical protein CBG13605 [Caenorhabditis briggsae] 1.0E-114
Protein Domains
Database ID Description E-Value
Pfam IPR001377 EMBL-EBI Ribosomal protein S6e 3.1E-71
Pfam IPR001377 EMBL-EBI Ribosomal protein S6e 1.9E-16
Pfam IPR001377 EMBL-EBI Ribosomal protein S6e 6.1E-47
Sequence
Target Sequence 
>C. ELEGANS:192860_AT
aagcaaggaattctcaccaacggacgtgttcgtcttctcttgaagaagggacaatcctgc
taccgtgagcgcaagaacggagagcgcaagagaaagtccgtccgtggatgcatcgtcgac
gccaacatgtccgctctttccctcgtcatcgtgaagaagggagatggagagatcgaagga
ctcaccgactccgttctcccacgcaagctcggaccaaagagagcctccaagatccgcaag
ctcttcaacttgaccaagcacgacgatgtcaccaaatacgtcatcacccacgacaagacc
ttcccagatggagtcaccaagaccatcgcaccaaagatccagcgtctcatcaccccagct
cgtatcgccagaaagaagtaccttctccgccagaagcgcaaccagaagatcaagatgcgc
gatgacgccgctgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGCAAGGAATTCTCACCAACGGAC 175 149 202 Antisense
CAACGGACGTGTTCGTCTTCTCTTG 693 187 219 Antisense
AATCCTGCTACCGTGAGCGCAAGAA 85 167 254 Antisense
GAGAAAGTCCGTCCGTGGATGCATC 213 393 291 Antisense
TCTTTCCCTCGTCATCGTGAAGAAG 422 615 336 Antisense
AGAGATCGAAGGACTCACCGACTCC 90 69 369 Antisense
CCAAGATCCGCAAGCTCTTCAACTT 115 277 428 Antisense
GACCAAGCACGACGATGTCACCAAA 306 385 453 Antisense
AAGACCTTCCCAGATGGAGTCACCA 192 153 496 Antisense
CGCACCAAAGATCCAGCGTCTCATC 302 251 528 Antisense
TCAAGATGCGCGATGACGCCGCTGC 167 633 611 Antisense
Sequence Source Affymetrix Proprietary Database