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[171994_x_at] 40S ribosomal protein

Description AV183163_rc /REP_DB=TREMBL Accession /GB=AV183163 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk647d12 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 31      6grp_high1_10_10 > 04      4grp_highest_8_8 > 05      4grp_high_8_8 > 30      6grp_highest_nonorm > 28      6grp_total > 34      4grp_total > 25      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 6727
1 2 3 4 range
A 12818.2
(-3)
P 		19292.8
(3)
P 		16772.6
(0.7)
P 		18751.9
(2.5)
P 		6475
B 13461.1
(-3)
P 		16018.1
(-0.2)
P 		16177.4
(-0)
P 		18943.8
(3)
P 		5483
C 15069.9
(-3)
P 		15839.6
(-2)
P 		15567
(-2.3)
P 		19545.4
(3)
P 		4476
avr 13783.1
(-3) 		17050.2
(0.7) 		16172.3
(-0.3) 		19080.4
(3) 		5297

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5040
1 2 3 4 5 6 range
A 10494.8
(-0.2)
P 		12684.1
(3)
P 		12358.2
(2.5)
P 		10422.7
(-0.3)
P 		8614
(-3)
P 		10105.5
(-0.8)
P 		4070
B 10868.4
(3)
P 		10753.2
(2.6)
P 		9208.4
(-2.5)
P 		10113.1
(0.5)
P 		9296.3
(-2.2)
P 		9061.8
(-3)
P 		1807
C 12510.9
(3)
P 		10364.4
(0.4)
P 		10673.7
(0.7)
P 		7643.7
(-3)
P 		12472.4
(3)
P 		9388.8
(-0.8)
P 		4867
avr 11291.4
(3) 		11267.2
(2.9) 		10746.8
(1.3) 		9393.2
(-3) 		10127.6
(-0.7) 		9518.7
(-2.6) 		1898
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2681
1 2 3 4 range
A 4667.1
(3)
P 		4187.9
(1.5)
P 		4384.7
(2.1)
P 		2744.9
(-3)
P 		1922
B 4292.6
(3)
P 		3956.1
(-0.7)
P 		3748.7
(-3)
P 		4036.9
(0.2)
P 		544
C 4988.6
(1.8)
P 		4554
(0.5)
P 		5425.6
(3)
P 		3295.7
(-3)
P 		2130
avr 4649.4
(3) 		4232.7
(1.1) 		4519.7
(2.4) 		3359.2
(-3) 		1290

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3100
1 2 3 4 5 6 range
A 1934.6
(-3)
P 		4511.1
(3)
P 		2691.4
(-1.2)
P 		2643.4
(-1.3)
P 		2599.3
(-1.5)
P 		2460.4
(-1.8)
P 		2577
B 3781.7
(3)
P 		3579.3
(2.2)
P 		2236.1
(-3)
P 		2678.6
(-1.3)
P 		3777
(3)
P 		3379.1
(1.4)
P 		1546
C 4637.2
(3)
P 		3162.5
(0.1)
P 		2716.6
(-0.7)
P 		1537.2
(-3)
P 		4035.9
(1.8)
P 		3143
(0.1)
P 		3100
avr 3451.2
(1.8) 		3751
(3) 		2548
(-1.9) 		2286.4
(-3) 		3470.7
(1.9) 		2994.2
(-0.1) 		1465
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171994_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27666
Sequence Type Exemplar sequence
Representative Public ID AV183163 NCBI
Target Description AV183163_rc /REP_DB=TREMBL Accession /GB=AV183163 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk647d12 : 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 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_065080(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065080 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-22) (rps-22) mRNA, complete cds. 9/11 A 
SNAP00000027590 ENSEMBL cdna:SNAP chromosome:CEL140:III:1940130:1951358:1 9/11 None
GENEFINDER00000027593 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:1950665:1951358:1 9/11 None
F53A3.3.1 ENSEMBL cdna:known chromosome:CEL140:III:1950524:1951414:1 gene:F53A3.3 9/11 A 
F53A3.3.3 ENSEMBL cdna:known chromosome:CEL140:III:1950643:1951417:1 gene:F53A3.3 9/11 None
F53A3.3.2 ENSEMBL cdna:known chromosome:CEL140:III:1950649:1951421:1 gene:F53A3.3 9/11 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:1951059-1951342(+) 91.53 91.53
Public Domain and Genome References
Gene Title 40S ribosomal protein
Gene Symbol rps-22
Ensembl F53A3.3
Entrez Gene 175338 Entrez gene
SwissProt O17218 EMBL-EBI
WormBase CE10884 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:247654_AT 40S ribosomal protein S15A (RPS15aF) at
CANINE_2:CFAAFFX.17499.1.S1_X_AT similar to ribosomal protein S15a cfa
CANINE_2:CFAAFFX.22678.1.S1_X_AT similar to ribosomal protein S15a cfa
CANINE_2:CFAAFFX.787.1.S1_AT similar to ribosomal protein S15a cfa
CHICKEN:GGA.1026.2.S1_A_AT similar to Rps15a protein gga
CHICKEN:GGA.1026.2.S1_AT similar to Rps15a protein gga
HG-U133_PLUS_2:200781_S_AT ribosomal protein S15a hs
HG-U133A:200781_S_AT ribosomal protein S15a hs
HG-FOCUS:200781_S_AT ribosomal protein S15a hs
HG-U133A_2:200781_S_AT ribosomal protein S15a hs
HG-U95AV2:34316_AT ribosomal protein S15a hs
HG-U95AV2:34317_G_AT ribosomal protein S15a hs
HU35KSUBC:RC_AA411682_AT ribosomal protein S15a hs
HUGENEFL:X62691_AT ribosomal protein S15a hs
U133_X3P:G4506688_3P_A_AT ribosomal protein S15a hs
U133_X3P:HS.2953.1.S1_3P_AT ribosomal protein S15a hs
HG-U133_PLUS_2:229882_AT ribosomal protein S15a hs
HG-U133B:229882_AT ribosomal protein S15a hs
HG-U95B:44303_AT ribosomal protein S15a hs
HG-U95AV2:33021_AT Chromosome 20 open reading frame 19 hs
HG-U133_PLUS_2:215466_AT Chromosome 20 open reading frame 19 hs
HG-U133A_2:215466_AT Chromosome 20 open reading frame 19 hs
HG-U133A:215466_AT Chromosome 20 open reading frame 19 hs
U133_X3P:HS2.434137.1.S1_3P_AT Chromosome 20 open reading frame 19 hs
U133_X3P:HS2.209620.1.S1_3P_S_AT Chromosome 20 open reading frame 19 hs
U133_X3P:HS.134526.0.S1_3P_AT Chromosome 20 open reading frame 19 hs
HG-U133_PLUS_2:1560673_AT Chromosome 20 open reading frame 19 hs
HG-U133_PLUS_2:1569698_S_AT Chromosome 20 open reading frame 19 hs
HG-U95D:70446_AT Chromosome 20 open reading frame 19 hs
HG-U95E:67724_AT Chromosome 20 open reading frame 19 hs
HG-U95D:76775_R_AT Chromosome 20 open reading frame 19 hs
HG-U95E:78946_R_AT Chromosome 20 open reading frame 19 hs
YEAST_2:1776010_AT Protein component of the small (40S) ribosomal subunit; nearly identical to Rps22Bp and has similarity to E. coli S8 and rat S15a 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 AAB70989 Ribosomal protein, small subunit protein 22 [Caenorhabditis elegans] ref|NP_497481.1| Ribosomal Protein, Small subunit family member (rps-22) [Caenorhabditis elegans] emb|CAE66465.1| Hypothetical protein CBG11742 [Caenorhabditis briggsae] 1.0E-67
blast AAI06350 Unknown (protein for MGC:130892) [Xenopus laevis] gb|AAH97585.1| Unknown (protein for MGC:114789) [Xenopus laevis] gb|AAL54900.1| ribosomal protein S15 isoform [Lapemis hardwickii] 4.0E-60
blast XP_425249 PREDICTED: similar to Rps15a protein [Gallus gallus] 4.0E-60
Protein Domains
Database ID Description E-Value
Pfam IPR000630 EMBL-EBI Ribosomal protein S8 2.4E-53
Pfam IPR000630 EMBL-EBI Ribosomal protein S8 2.4E-53
Sequence
Target Sequence 
>C. ELEGANS:171994_X_AT
tccgcttcttgaccgtcatgatgaagcacggatacatcggagagttcgagatcgtcgacg
accaccgcgccggaaagatcgtcgtcaacctcaccggacgtctcgacaaggcctccgtca
tctccccacgtctcaacatccgtctaaacgatttggagaagnacaccaacaccntcntcc
catcccgtcagttcggatatctcatccttaccacctccgccggaatcatggaccacgagg
aggccagaagaaag

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
TCCGCTTCTTGACCGTCATGATGAA 706 595 35 Antisense
TTCTTGACCGTCATGATGAAGCACG 76 689 40 Antisense
GAAGCACGGATACATCGGAGAGTTC 47 341 57 Antisense
ACATCGGAGAGTTCGAGATCGTCGA 192 105 68 Antisense
AGTTCGAGATCGTCGACGACCACCG 705 63 77 Antisense
CACGTCTCAACATCCGTCTAAACGA 467 199 161 Antisense
AACATCCGTCTAAACGATTTGGAGA 653 137 169 Antisense
CCATCCCGTCAGTTCGGATATCTCA 364 271 214 Antisense
AGTTCGGATATCTCATCCTTACCAC 101 65 224 Antisense
CCGCCGGAATCATGGACCACGAGGA 295 261 251 Antisense
GGACCACGAGGAGGCCAGAAGAAAG 352 523 264 Antisense
Sequence Source Affymetrix Proprietary Database