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[189778_s_at] ribosomal protein

Description K02B2.5 /REP_DB=WormBase Gene ID /WP=CE04691 /GEN=rps-25 /GB=AAK39246.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=ribosomal protein
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 40      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 09      6grp_total > 42      4grp_total > 17      6grp_cgc > 92      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 22483
1 2 3 4 range
A 26395.1
(-3)
P 		35131.4
(-0.5)
P 		32200.7
(-1.3)
P 		47064.9
(3)
P 		20670
B 28532.1
(-3)
P 		28779.7
(-2.7)
P 		33304.5
(2.5)
P 		33780.7
(3)
P 		5249
C 24582.4
(-3)
P 		25991.3
(-2.5)
P 		25488.3
(-2.7)
P 		40824.3
(3)
P 		16242
avr 26503.2
(-3) 		29967.5
(-1.5) 		30331.2
(-1.4) 		40556.6
(3) 		14053

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14550
1 2 3 4 5 6 range
A 35858.4
(2.9)
P 		26648
(-1.8)
P 		36030.8
(3)
P 		27930.3
(-1.2)
P 		24343
(-3)
P 		26645.5
(-1.8)
P 		11688
B 22263.8
(-2.6)
P 		25635.4
(-0.8)
P 		32696.8
(3)
P 		28737.6
(0.9)
P 		21480.6
(-3)
P 		21931.6
(-2.8)
P 		11216
C 23586.7
(-3)
P 		27221.8
(1.5)
P 		28438
(3)
P 		26823.8
(1)
P 		24687.5
(-1.6)
P 		25829
(-0.2)
P 		4851
avr 27236.3
(-0.5) 		26501.7
(-1) 		32388.5
(3) 		27830.6
(-0.1) 		23503.7
(-3) 		24802
(-2.1) 		8885
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2727
1 2 3 4 range
A 9610.5
(3)
P 		7626.1
(-1.4)
P 		8417.9
(0.4)
P 		6889.4
(-3)
P 		2721
B 9098.7
(3)
P 		7107.9
(-3)
P 		7717.4
(-1.2)
P 		7198.7
(-2.7)
P 		1991
C 8137.5
(0.8)
P 		7472.6
(-1.2)
P 		8883.5
(3)
P 		6883.6
(-3)
P 		2000
avr 8948.9
(3) 		7402.2
(-1.7) 		8339.6
(1.1) 		6990.6
(-3) 		1958

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4083
1 2 3 4 5 6 range
A 6610.2
(-2.8)
P 		9477.3
(3)
P 		7846.7
(-0.3)
P 		7083.8
(-1.8)
P 		7345.7
(-1.3)
P 		6487.3
(-3)
P 		2990
B 7746.7
(-2.3)
P 		8533
(2)
P 		7939.8
(-1.2)
P 		7611.6
(-3)
P 		8727.3
(3)
P 		8178.2
(0)
P 		1116
C 8742.6
(3)
P 		8306.2
(2.2)
P 		7237.9
(0.3)
P 		5394.3
(-3)
P 		7988.5
(1.6)
P 		8646.5
(2.8)
P 		3348
avr 7699.8
(-0.1) 		8772.2
(3) 		7674.8
(-0.2) 		6696.6
(-3) 		8020.5
(0.8) 		7770.7
(0.1) 		2076
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189778_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10530
Sequence Type Exemplar sequence
Representative Public ID K02B2.5 NCBI
Target Description K02B2.5 /REP_DB=WormBase Gene ID /WP=CE04691 /GEN=rps-25 /GB=AAK39246.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=ribosomal protein
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_068494(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068494 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-25) (rps-25) mRNA, complete cds. 11/11 None
SNAP00000017502 ENSEMBL cdna:SNAP chromosome:CEL140:IV:5947118:5947584:-1 11/11 None
GENEFINDER00000017509 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:5947118:5947584:-1 11/11 None
K02B2.5.3 ENSEMBL cdna:known chromosome:CEL140:IV:5947074:5947591:-1 gene:K02B2.5 11/11 None
K02B2.5.2 ENSEMBL cdna:known chromosome:CEL140:IV:5947074:5947591:-1 gene:K02B2.5 11/11 None
K02B2.5.1 ENSEMBL cdna:known chromosome:CEL140:IV:5947074:5947589:-1 gene:K02B2.5 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
chrIV:5947123-5947590(-) 100.0 100.0
Public Domain and Genome References
Gene Title ribosomal protein
Gene Symbol rps-25
Ensembl K02B2.5
Entrez Gene 177365 Entrez gene
SwissProt P52821 EMBL-EBI
WormBase CE04691 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:252912_AT 40S ribosomal protein S25 (RPS25E) at
DROSOPHILA_2:1627774_A_AT Ribosomal protein S25 dm
DROSGENOME1:143620_AT Ribosomal protein S25 dm
HU35KSUBA:H62426_AT similar to 40S ribosomal protein S25 hs
U133_X3P:HS.113029.1.A1_3P_X_AT similar to 40S ribosomal protein S25 hs
YEAST_2:1775933_AT Protein component of the small (40S) ribosomal subunit; nearly identical to Rps25Ap and has similarity to rat S25 ribosomal protein Sc
Protein Similarities
Method ID Description E-Value
blast CAE64681 Hypothetical protein CBG09459 [Caenorhabditis briggsae] 4.0E-39
blast AAK39246 Ribosomal protein, small subunit protein 25 [Caenorhabditis elegans] ref|NP_500895.1| Ribosomal Protein, Small subunit family member (rps-25) [Caenorhabditis elegans] sp|P52821|RS25_CAEEL 40S ribosomal protein S25 4.0E-39
Protein Domains
Database ID Description E-Value
Pfam IPR004977 EMBL-EBI S25 ribosomal protein 5.3E-75
Sequence
Target Sequence 
>C. ELEGANS:189778_S_AT
aggtcagggataagcttaacaacatggtgcttttcgaccaggccacctacgacaagctct
acaaggaggtcatcacctacaagctcatcacaccatccgtcgtctctgaacgtctgaagg
ttcgtgcttcattggccaaggctggactcaaggagctccaagccaagggactcgtcaagt
gcgtcgttcatcatcac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGGTCAGGGATAAGCTTAACAACAT 480 57 116 Antisense
GCTTAACAACATGGTGCTTTTCGAC 68 305 129 Antisense
CAACATGGTGCTTTTCGACCAGGCC 426 189 135 Antisense
GCCACCTACGACAAGCTCTACAAGG 654 277 157 Antisense
AAGCTCTACAAGGAGGTCATCACCT 439 149 169 Antisense
ACAAGGAGGTCATCACCTACAAGCT 3 115 176 Antisense
TCCGTCGTCTCTGAACGTCTGAAGG 502 593 211 Antisense
CTCTGAACGTCTGAAGGTTCGTGCT 244 229 219 Antisense
CCAAGGGACTCGTCAAGTGCGTCGT 390 275 278 Antisense
ACTCGTCAAGTGCGTCGTTCATCAT 501 99 285 Antisense
CGTCAAGTGCGTCGTTCATCATCAC 215 247 288 Antisense
Sequence Source Affymetrix Proprietary Database