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[173251_s_at] Ribosomal protein S19e

Description C66781 /REP_DB=TREMBL Accession /GB=C66781 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk232g9 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 40      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 09      6grp_total > 42      4grp_total > 17      6grp_cgc > 91      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 25736
1 2 3 4 range
A 26072.9
(-3)
P 		36590.2
(-0.5)
P 		31866.3
(-1.6)
P 		51809.3
(3)
P 		25736
B 27311.5
(-3)
P 		30744.1
(-1)
P 		34942.2
(1.5)
P 		37593.5
(3)
P 		10282
C 26142
(-3)
P 		30146.7
(-1.8)
P 		27001.1
(-2.7)
P 		46214.7
(3)
P 		20073
avr 26508.8
(-3) 		32493.7
(-1.1) 		31269.9
(-1.5) 		45205.8
(3) 		18697

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10634
1 2 3 4 5 6 range
A 25239
(0.2)
P 		21143.8
(-2.2)
P 		30115.5
(3)
P 		23084.7
(-1)
P 		19867.4
(-2.9)
P 		19664.6
(-3)
P 		10451
B 22285.5
(-0.3)
P 		19482
(-3)
P 		25700.1
(3)
P 		20482.6
(-2)
P 		20290.1
(-2.2)
P 		20083.3
(-2.4)
P 		6218
C 22360.6
(0.4)
P 		20232.2
(-3)
P 		22229
(0.1)
P 		24040.1
(3)
P 		22805.8
(1.1)
P 		22028
(-0.2)
P 		3808
avr 23295
(0.2) 		20286
(-3) 		26014.9
(3) 		22535.8
(-0.6) 		20987.8
(-2.3) 		20592
(-2.7) 		5729
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1909
1 2 3 4 range
A 9493.2
(3)
P 		7942.7
(-1.9)
P 		8330.5
(-0.7)
P 		7583.9
(-3)
P 		1909
B 8709.4
(3)
P 		7593.1
(-3)
P 		8096.9
(-0.3)
P 		8011.2
(-0.8)
P 		1116
C 8653.8
(0.2)
P 		8667.4
(0.2)
P 		9410.7
(3)
P 		7792.5
(-3)
P 		1618
avr 8952.1
(3) 		8067.7
(-1.6) 		8612.7
(1.2) 		7795.9
(-3) 		1156

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3636
1 2 3 4 5 6 range
A 4652.6
(-3)
P 		7519.8
(3)
P 		6558.5
(1)
P 		5854.8
(-0.5)
P 		5995.1
(-0.2)
P 		4787.7
(-2.7)
P 		2867
B 7754.3
(2)
P 		6484.7
(-0.7)
P 		6240.8
(-1.3)
P 		5425.1
(-3)
P 		8243.6
(3)
P 		7489
(1.4)
P 		2819
C 8288.1
(3)
P 		6173.5
(-0.7)
P 		5657.7
(-1.6)
P 		4834.5
(-3)
P 		7379.6
(1.4)
P 		7374
(1.4)
P 		3454
avr 6898.3
(2) 		6726
(1.4) 		6152.3
(-0.4) 		5371.5
(-3) 		7206.1
(3) 		6550.2
(0.9) 		1835
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173251_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27871
Sequence Type Exemplar sequence
Representative Public ID C66781 NCBI
Target Description C66781 /REP_DB=TREMBL Accession /GB=C66781 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk232g9 : 5prime 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_060154(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060154 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-19) (rps-19) mRNA, complete cds. 11/11 A 
SNAP00000020941 ENSEMBL cdna:SNAP chromosome:CEL140:I:9633229:9633913:-1 11/11 None
GENEFINDER00000020955 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9633229:9633913:-1 11/11 None
T05F1.3.1 ENSEMBL cdna:known chromosome:CEL140:I:9633174:9633924:-1 gene:T05F1.3 11/11 A 
T05F1.3.3 ENSEMBL cdna:known chromosome:CEL140:I:9633176:9634282:-1 gene:T05F1.3 11/11 A 
T05F1.3.2 ENSEMBL cdna:known chromosome:CEL140:I:9633176:9633918:-1 gene:T05F1.3 11/11 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
chrI:9633135-9633708(-) 76.38 76.38
Public Domain and Genome References
Gene Title Ribosomal protein S19e
Gene Symbol rps-19
Ensembl T05F1.3
Entrez Gene 172805 Entrez gene
SwissProt O18650 EMBL-EBI
WormBase CE13265 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:258858_AT 40S ribosomal protein S19 (RPS19A) at
DROSOPHILA_2:1637448_S_AT Ribosomal protein S19a dm
DROSGENOME1:143619_AT Ribosomal protein S19a dm
RG-U34A:X51707CDS_S_AT similar to ribosomal protein S19 rn
RG-U34C:RC_AI177042_I_AT similar to ribosomal protein S19 rn
YEAST_2:1776940_S_AT Protein component of the small (40S) ribosomal subunit; nearly identical to Rps19Bp and has similarity to rat S19 ribosomal protein Sc
YEAST_2:1777241_AT Protein component of the small (40S) ribosomal subunit; nearly identical to Rps19Bp and has similarity to rat S19 ribosomal protein 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 CAB04689 Hypothetical protein T05F1.3 [Caenorhabditis elegans] ref|NP_492555.1| Ribosomal Protein, Small subunit family member (rps-19) [Caenorhabditis elegans] sp|O18650|RS19_CAEEL 40S ribosomal protein S19 gb|AAB69445.1| ribosomal protein S19 [Caenorhabditis elegans] 2.0E-80
blast CAE60155 Hypothetical protein CBG03707 [Caenorhabditis briggsae] 6.0E-80
Protein Domains
Database ID Description E-Value
Pfam IPR001266 EMBL-EBI Ribosomal protein S19e 2.2E-81
Sequence
Target Sequence 
>C. ELEGANS:173251_S_AT
atcggagccttcaagaaggtctacggaggaaacaagagacgtggtgttgcaccaaaccat
ttccaaacctcagctggaaactgcctcagaaaggctgttcagcaactcgagaagatcaag
tgggttgagaagcacccagacggcaaaggaagaattctctccannnnnnnnnnnnnnnnn
nnnnnnngaatcgccaccagcctcagatcctctggacaacaagcctaa

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
ATCGGAGCCTTCAAGAAGGTCTACG 616 33 118 Antisense
CAAGAAGGTCTACGGAGGAAACAAG 707 125 129 Antisense
GAAACAAGAGACGTGGTGTTGCACC 240 355 146 Antisense
GTGGTGTTGCACCAAACCATTTCCA 410 489 158 Antisense
CAAACCTCAGCTGGAAACTGCCTCA 107 193 181 Antisense
AACTGCCTCAGAAAGGCTGTTCAGC 84 143 196 Antisense
GGCTGTTCAGCAACTCGAGAAGATC 191 541 210 Antisense
GGGTTGAGAAGCACCCAGACGGCAA 536 477 239 Antisense
GAAGCACCCAGACGGCAAAGGAAGA 585 341 246 Antisense
GCCTCAGATCCTCTGGACAACAAGC 189 283 317 Antisense
CAGATCCTCTGGACAACAAGCCTAA 546 205 321 Antisense
Sequence Source Affymetrix Proprietary Database