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[171959_x_at] ribosomal protein S13

Description AV178680_rc /REP_DB=TREMBL Accession /GB=AV178680 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk570c6 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 30      6grp_high1_10_10 > 04      4grp_highest_8_8 > 13      4grp_high_8_8 > 31      6grp_highest_nonorm > 31      6grp_total > 15      4grp_total > 24      6grp_highest_sub > De      6grp_cgc > 32      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 569
1 2 3 4 range
A 1016.2
(-3)
P 		1233.1
(-0.5)
P 		1543
(3)
P 		1473.9
(2.2)
P 		527
B 1272.2
(-3)
P 		1403.5
(-0.5)
P 		1585.1
(3)
P 		1517.8
(1.7)
P 		313
C 1103
(-3)
P 		1204.4
(-1.5)
P 		1149.3
(-2.3)
P 		1499.8
(3)
P 		397
avr 1130.5
(-3) 		1280.3
(-0.5) 		1425.8
(1.8) 		1497.2
(3) 		367

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 512
1 2 3 4 5 6 range
A 1075.6
(3)
P 		1027.7
(2.2)
P 		911.8
(0.4)
P 		903.3
(0.2)
P 		830.8
(-0.9)
P 		701.4
(-3)
P 		374
B 1112.7
(1.6)
P 		1213.8
(3)
P 		1136.5
(1.9)
P 		903.2
(-1.4)
P 		1004.6
(0.1)
P 		785.4
(-3)
P 		428
C 1194.1
(3)
P 		1102.7
(1.5)
P 		855.2
(-2.6)
P 		838.9
(-2.9)
P 		905.4
(-1.8)
P 		830.9
(-3)
P 		363
avr 1127.5
(3) 		1114.7
(2.8) 		967.8
(0.3) 		881.8
(-1.2) 		913.6
(-0.6) 		772.6
(-3) 		355
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 190
1 2 3 4 range
A 370
(1.9)
P 		267.7
(-1.3)
P 		403.4
(3)
P 		215.7
(-3)
P 		188
B 405.7
(3)
P 		346.6
(-1.3)
P 		367.3
(0.2)
P 		323.4
(-3)
P 		82
C 365.1
(1.6)
P 		346.3
(0.8)
P 		400.6
(3)
P 		252.9
(-3)
P 		148
avr 380.3
(2.5) 		320.2
(-0.3) 		390.4
(3) 		264
(-3) 		126

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 274
1 2 3 4 5 6 range
A 198.3
(-2.2)
P 		365.5
(3)
P 		198.6
(-2.1)
P 		229.1
(-1.2)
P 		250.7
(-0.5)
P 		170.8
(-3)
P 		195
B 387.2
(2.3)
P 		404
(2.9)
P 		276
(-1.7)
P 		239.2
(-3)
P 		408.1
(3)
P 		292.9
(-1.1)
P 		169
C 442.6
(3)
P 		336.5
(0.7)
P 		217.7
(-1.9)
P 		168.7
(-3)
P 		293
(-0.3)
P 		278.2
(-0.6)
P 		274
avr 342.7
(2) 		368.7
(3) 		230.8
(-2.3) 		212.3
(-3) 		317.3
(1) 		247.3
(-1.7) 		156
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171959_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27692
Sequence Type Exemplar sequence
Representative Public ID AV178680 NCBI
Target Description AV178680_rc /REP_DB=TREMBL Accession /GB=AV178680 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk570c6 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_070393
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
Y57G11C.16.4 ENSEMBL cdna:known chromosome:CEL140:IV:14825639:14826851:1 gene:Y57G11C.16 None
Y57G11C.16.3 ENSEMBL cdna:known chromosome:CEL140:IV:14825641:14826410:1 gene:Y57G11C.16 A 
Y57G11C.16.1 ENSEMBL cdna:known chromosome:CEL140:IV:14825641:14826851:1 gene:Y57G11C.16 A 
SNAP00000003488 ENSEMBL cdna:SNAP chromosome:CEL140:IV:14825661:14826326:1 None
GENEFINDER00000003613 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:14825661:14826326:1 None
NM_070393 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-18) (rps-18) mRNA, complete cds. A 
Y57G11C.16.2 ENSEMBL cdna:known chromosome:CEL140:IV:14825636:14826882:1 gene:Y57G11C.16 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:14825870-14826331(+) 87.95 87.95
Public Domain and Genome References
Gene Title ribosomal protein S13
Gene Symbol rps-18
Ensembl Y57G11C.16
Entrez Gene 178408 Entrez gene
SwissProt O18240 EMBL-EBI
WormBase CE14956 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264203_AT 40S ribosomal protein S18 (RPS18A) at
CANINE:1583118_S_AT Ribosomal protein S18 cfa
CANINE:1592141_AT Ribosomal protein S18 cfa
CANINE:1589771_AT Ribosomal protein S18 cfa
CANINE_2:CFA.3548.1.A1_AT Ribosomal protein S18 cfa
CANINE_2:CFA.3548.1.A1_S_AT Ribosomal protein S18 cfa
DROSOPHILA_2:1624983_S_AT Ribosomal protein S18 dm
DROSGENOME1:143618_AT Ribosomal protein S18 dm
HG-U133A:201049_S_AT ribosomal protein S18 hs
HG-U133_PLUS_2:201049_S_AT ribosomal protein S18 hs
HG-FOCUS:201049_S_AT ribosomal protein S18 hs
HG-U133A_2:201049_S_AT ribosomal protein S18 hs
HU35KSUBD:RC_AA205326_S_AT ribosomal protein S18 hs
HU35KSUBD:RC_R49198_I_AT ribosomal protein S18 hs
HU35KSUBD:RC_R49198_S_AT ribosomal protein S18 hs
HUGENEFL:X69150_AT ribosomal protein S18 hs
U133_X3P:G11968181_3P_A_AT ribosomal protein S18 hs
HG-U95AV2:31545_AT ribosomal protein S18 hs
HG-U133_PLUS_2:244559_AT Ribosomal protein S18 hs
HG-U133B:244559_AT Ribosomal protein S18 hs
HG-U95D:70248_AT Ribosomal protein S18 hs
U133_X3P:HS.298188.0.A1_3P_AT Ribosomal protein S18 hs
MOE430A:1448739_X_AT ribosomal protein S18 mm
MOUSE430A_2:1448739_X_AT ribosomal protein S18 mm
MOUSE430_2:1448739_X_AT ribosomal protein S18 mm
MOUSE430_2:1435712_A_AT ribosomal protein S18 mm
MOE430A:1435712_A_AT ribosomal protein S18 mm
MOUSE430A_2:1435712_A_AT ribosomal protein S18 mm
MOE430A:1455572_X_AT ribosomal protein S18 mm
MOUSE430A_2:1455572_X_AT ribosomal protein S18 mm
MOUSE430_2:1455572_X_AT ribosomal protein S18 mm
MU11KSUBA:M76763_F_AT ribosomal protein S18 mm
MG-U74AV2:98333_AT ribosomal protein S18 mm
MU19KSUBB:TC33397_F_AT Ribosomal protein S18 (Rps18), transcript variant 1, mRNA mm
RG-U34A:X57529CDS_S_AT ribosomal protein S18 rn
RG-U34C:RC_AI233220_R_AT ribosomal protein S18 rn
RAE230A:1388296_AT ribosomal protein S18 rn
RAT230_2:1388296_AT ribosomal protein S18 rn
YEAST_2:1771906_AT Protein component of the small (40S) ribosomal subunit; nearly identical to Rps18Ap and has similarity to E. coli S13 and rat S18 ribosomal proteins Sc
YEAST_2:1774596_S_AT Protein component of the small (40S) ribosomal subunit; nearly identical to Rps18Ap and has similarity to E. coli S13 and rat S18 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
3723 RNA 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 CAB16517 Hypothetical protein Y57G11C.16 [Caenorhabditis elegans] ref|NP_502794.1| Ribosomal Protein, Small subunit family member (rps-18) [Caenorhabditis elegans] 2.0E-77
blast CAE73901 Hypothetical protein CBG21507 [Caenorhabditis briggsae] 6.0E-77
Protein Domains
Database ID Description E-Value
Pfam IPR001892 EMBL-EBI Ribosomal protein S13 2.5E-73
Sequence
Target Sequence 
>C. ELEGANS:171959_X_AT
cgcgccggagagctacatggagggggacttggcaagattgtcaccataaatnnnnnnnnn
nnncgatacgaaatcccaaattggttccttaacagacataaggacttcaaggccggagag
actggacagatcntatccaccncngtagacaacaagatccgtgaggattttgagcgcatg
aagaagatcngtctccacagaggactcagacattacatggggacttcgcgtcagaggaca
gcacaccaagaccac

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGCGCCGGAGAGCTACATGGAGGGG 627 255 17 Antisense
GAGCTACATGGAGGGGGACTTGGCA 517 385 26 Antisense
GGGACTTGGCAAGATTGTCACCATA 207 495 40 Antisense
TCCCAAATTGGTTCCTTAACAGACA 555 597 90 Antisense
GACATAAGGACTTCAAGGCCGGAGA 503 369 111 Antisense
CAAGGCCGGAGAGACTGGACAGATC 610 181 124 Antisense
GATCCGTGAGGATTTTGAGCGCATG 94 417 172 Antisense
GTCTCCACAGAGGACTCAGACATTA 403 471 207 Antisense
GACATTACATGGGGACTTCGCGTCA 451 369 225 Antisense
GGGACTTCGCGTCAGAGGACAGCAC 590 493 236 Antisense
TCAGAGGACAGCACACCAAGACCAC 573 623 247 Antisense
Sequence Source Affymetrix Proprietary Database