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[174511_s_at] 40S ribosomal protein S13

Description CEC526_rc /REP_DB=TREMBL Accession /GB=C07526 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk141e12 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 20      4grp_highest_8_8 > 21      4grp_high_8_8 > 15      6grp_highest_nonorm > 18      6grp_total > 32      4grp_total > 08      6grp_cgc > 71      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12753
1 2 3 4 range
A 18131.7
(-3)
P 		21496.9
(-1.3)
P 		23659.6
(-0.2)
P 		29941.4
(3)
P 		11810
B 19598.9
(-2)
P 		18562.1
(-3)
P 		21822.7
(0.1)
P 		24931.2
(3)
P 		6369
C 17188.1
(-3)
P 		17633.4
(-2.7)
P 		18877.9
(-2)
P 		27132.1
(3)
P 		9944
avr 18306.2
(-3) 		19230.8
(-2.4) 		21453.4
(-0.9) 		27334.9
(3) 		9029

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5422
1 2 3 4 5 6 range
A 14620.8
(-0.3)
P 		15932.6
(1.2)
P 		17590.9
(3)
P 		16069.9
(1.3)
P 		12168.5
(-3)
P 		15136.8
(0.3)
P 		5422
B 14936.7
(3)
P 		14691.1
(2.4)
P 		13373.7
(-0.9)
P 		13147
(-1.5)
P 		12611.9
(-2.8)
P 		12535.4
(-3)
P 		2401
C 15404.9
(0.8)
P 		14535.4
(-0.7)
P 		16657.8
(3)
P 		15470.8
(0.9)
P 		15201.6
(0.4)
P 		13252.6
(-3)
P 		3405
avr 14987.5
(0.9) 		15053
(1.1) 		15874.1
(3) 		14895.9
(0.7) 		13327.3
(-3) 		13641.6
(-2.3) 		2547
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2219
1 2 3 4 range
A 6601.8
(3)
P 		4666.4
(-2.2)
P 		6185.1
(1.9)
P 		4382.8
(-3)
P 		2219
B 6249.9
(3)
P 		4584.4
(-3)
P 		5056.8
(-1.3)
P 		5312.8
(-0.4)
P 		1666
C 5689.7
(0.3)
P 		5069.7
(-1.5)
P 		6579.5
(3)
P 		4574.9
(-3)
P 		2005
avr 6180.5
(3) 		4773.5
(-2.9) 		5940.5
(2) 		4756.8
(-3) 		1424

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3015
1 2 3 4 5 6 range
A 2695.2
(-3)
P 		5666.4
(3)
P 		3830.9
(-0.7)
P 		4075.7
(-0.2)
P 		3671.9
(-1)
P 		3685.3
(-1)
P 		2971
B 5197.2
(3)
P 		4890.1
(2.1)
P 		3247.5
(-3)
P 		3482.2
(-2.3)
P 		5124.1
(2.8)
P 		4674.4
(1.4)
P 		1950
C 5709.9
(3)
P 		4435.2
(0.1)
P 		4239.7
(-0.4)
P 		3111.2
(-3)
P 		4919
(1.2)
P 		4436.4
(0.1)
P 		2599
avr 4534.1
(1.1) 		4997.2
(3) 		3772.7
(-2.1) 		3556.4
(-3) 		4571.7
(1.2) 		4265.4
(-0) 		1441
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174511_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21098
Sequence Type Exemplar sequence
Representative Public ID CEC526 NCBI
Target Description CEC526_rc /REP_DB=TREMBL Accession /GB=C07526 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk141e12 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_065992(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065992 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-13) (rps-13) mRNA, complete cds. 11/11 None
SNAP00000030739 ENSEMBL cdna:SNAP chromosome:CEL140:III:6370280:6374918:-1 11/11 None
GENEFINDER00000030799 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:6374069:6374918:-1 11/11 None
C16A3.9.1 ENSEMBL cdna:known chromosome:CEL140:III:6373811:6374934:-1 gene:C16A3.9 11/11 None
C16A3.9.2 ENSEMBL cdna:known chromosome:CEL140:III:6373811:6374940:-1 gene:C16A3.9 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
chrIII:6374056-6374602(-) 100.0 100.0
Public Domain and Genome References
Gene Title 40S ribosomal protein S13
Gene Symbol rps-13
Ensembl C16A3.9
Entrez Gene 175901 Entrez gene
WormBase CE04009 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:251341_AT 40S ribosomal protein S13 (RPS13A) at
CANINE:1605724_AT similar to ribosomal protein S13 cfa
CANINE:1585713_X_AT similar to ribosomal protein S13 cfa
CANINE:1585076_X_AT similar to ribosomal protein S13 cfa
CANINE:1583788_S_AT similar to ribosomal protein S13 cfa
CANINE_2:CFA.3205.1.A1_S_AT similar to ribosomal protein S13 cfa
CANINE_2:CFAAFFX.13722.1.S1_AT similar to ribosomal protein S13 cfa
DROSOPHILA_2:1635303_AT Ribosomal protein S13 dm
DROSGENOME1:154219_AT Ribosomal protein S13 dm
CHICKEN:GGA.8499.1.S1_S_AT ribosomal protein S13 gga
CHICKEN:GGA.8499.2.S1_AT ribosomal protein S13 gga
CHICKEN:GGA.8499.4.S1_A_AT Ribosomal protein S13 gga
CHICKEN:GGA.8499.4.A1_AT Ribosomal protein S13 gga
PLASMODIUM_ANOPHELES:200018_AT ribosomal protein S13 hs
HG-U133_PLUS_2:200018_AT ribosomal protein S13 hs
HG-FOCUS:200018_AT ribosomal protein S13 hs
HG-U133A:200018_AT ribosomal protein S13 hs
HG-U133B:200018_AT ribosomal protein S13 hs
HG-U133A_2:200018_AT ribosomal protein S13 hs
U133_X3P:200018_AT ribosomal protein S13 hs
HG-U95AV2:33619_AT ribosomal protein S13 hs
U133_X3P:G4506684_3P_S_AT ribosomal protein S13 hs
U133_X3P:G4506684_3P_AT ribosomal protein S13 hs
HG-U95C:56205_I_AT ribosomal protein S13 hs
HG-U95C:56208_F_AT ribosomal protein S13 hs
MOE430A:1415913_AT ribosomal protein S13 mm
MOUSE430_2:1415913_AT ribosomal protein S13 mm
MOUSE430A_2:1415913_AT ribosomal protein S13 mm
MOE430A:1448142_X_AT ribosomal protein S13 mm
MOUSE430_2:1448142_X_AT ribosomal protein S13 mm
MOUSE430A_2:1448142_X_AT ribosomal protein S13 mm
MOE430A:1415912_A_AT ribosomal protein S13 mm
MOUSE430_2:1415912_A_AT ribosomal protein S13 mm
MOUSE430A_2:1415912_A_AT ribosomal protein S13 mm
MU11KSUBA:AA543724_F_AT ribosomal protein S13 mm
MG-U74CV2:134043_AT ribosomal protein S13 mm
MOUSE430A_2:1438794_X_AT Ribosomal protein S13, mRNA (cDNA clone MGC:18694 IMAGE:4016679) mm
MOE430A:1438794_X_AT Ribosomal protein S13, mRNA (cDNA clone MGC:18694 IMAGE:4016679) mm
MOUSE430_2:1438794_X_AT Ribosomal protein S13, mRNA (cDNA clone MGC:18694 IMAGE:4016679) mm
MU19KSUBC:TC35530_AT Ribosomal protein S13, mRNA (cDNA clone MGC:18694 IMAGE:4016679) mm
RG-U34A:X53378CDS_S_AT ribosomal protein S13 rn
RG-U34A:RC_AI639224_AT ribosomal protein S13 rn
RG-U34B:RC_AI030983_AT ribosomal protein S13 rn
RAE230A:1398872_AT ribosomal protein S13 rn
RAT230_2:1398872_AT ribosomal protein S13 rn
RAE230B:1392232_AT ribosomal protein S13 rn
RAT230_2:1392232_AT ribosomal protein S13 rn
YEAST_2:1770971_AT Protein component of the small (40S) ribosomal subunit; has similarity to E. coli S15 and rat S13 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 AAB47594 Ribosomal protein, small subunit protein 13 [Caenorhabditis elegans] ref|NP_498393.1| Ribosomal Protein, Small subunit family member (rps-13) [Caenorhabditis elegans] sp|P51404|RS13_CAEEL 40S ribosomal protein S13 2.0E-81
blast CAE72508 Hypothetical protein CBG19687 [Caenorhabditis briggsae] 1.0E-80
blast AAB47594 Ribosomal protein, small subunit protein 13 [Caenorhabditis elegans] ref|NP_498393.1| Ribosomal Protein, Small subunit family member (rps-13) [Caenorhabditis elegans] sp|P51404|RS13_CAEEL 40S ribosomal protein S13 5.0E-80
blast CAE72508 Hypothetical protein CBG19687 [Caenorhabditis briggsae] 3.0E-79
Protein Domains
Database ID Description E-Value
Pfam IPR000589 EMBL-EBI Ribosomal protein S15 1.0E-29
Pfam IPR000589 EMBL-EBI Ribosomal protein S15 4.7E-28
Sequence
Target Sequence 
>C. ELEGANS:174511_S_AT
ccaaatcggagttatcctcagggattcccacggagttggacaagtccgccgtcttgccgg
aaacaagatcttccgcatcctcaaggaatggctccagagctcccagaggatttgtaccat
ctcgtcaagaaggccgtcgccattcgcaagcatcttgagagatcccgcaaggacattgac
agcaagtacagacttatcctcgtcgagtcccgtatccaccgtttggctagatactacaag
accaagcgtcagcttccaccaacctggaagtacgagtctggaaccgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCAAATCGGAGTTATCCTCAGGGAT 560 275 13 Antisense
TTATCCTCAGGGATTCCCACGGAGT 428 669 24 Antisense
TTGCCGGAAACAAGATCTTCCGCAT 69 703 66 Antisense
TCAAGAAGGCCGTCGCCATTCGCAA 556 629 137 Antisense
TCGCAAGCATCTTGAGAGATCCCGC 573 599 156 Antisense
GGACATTGACAGCAAGTACAGACTT 359 523 183 Antisense
GTACAGACTTATCCTCGTCGAGTCC 55 459 198 Antisense
TCCACCGTTTGGCTAGATACTACAA 92 587 227 Antisense
TACAAGACCAAGCGTCAGCTTCCAC 43 641 247 Antisense
CCACCAACCTGGAAGTACGAGTCTG 255 271 268 Antisense
CCTGGAAGTACGAGTCTGGAACCGC 63 235 275 Antisense
Sequence Source Affymetrix Proprietary Database