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[173286_s_at] ribosomal protein

Description C37365_rc /REP_DB=TREMBL Accession /GB=C37365 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk464h3 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 13      6grp_high1_10_10 > 02      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 08      6grp_total > 33      4grp_total > 17      6grp_high1_sub > De      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 12789
1 2 3 4 range
A 24353.8
(-3)
P 		25767.2
(-2.2)
P 		28446.6
(-0.8)
P 		35651.1
(3)
P 		11297
B 23680
(-3)
P 		26940.8
(0.8)
P 		27131.3
(1)
P 		28849.2
(3)
P 		5169
C 23870.8
(-2.3)
P 		25078.4
(-1.5)
P 		22862.5
(-3)
P 		31926.1
(3)
P 		9064
avr 23968.2
(-3) 		25928.8
(-1.6) 		26146.8
(-1.4) 		32142.1
(3) 		8174

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9243
1 2 3 4 5 6 range
A 23902.6
(3)
P 		18338.3
(-0.6)
P 		23905.9
(3)
P 		17179.5
(-1.4)
P 		14662.6
(-3)
P 		15566.8
(-2.4)
P 		9243
B 23057
(3)
P 		20114.2
(0.8)
P 		23005.7
(3)
P 		19196.7
(0.1)
P 		15202.9
(-3)
P 		16272.9
(-2.2)
P 		7854
C 19289.2
(1.6)
P 		20614.5
(3)
P 		18866.8
(1.2)
P 		19347.8
(1.7)
P 		15258.1
(-2.7)
P 		14930.2
(-3)
P 		5684
avr 22082.9
(3) 		19689
(1) 		21926.1
(2.9) 		18574.7
(0) 		15041.2
(-3) 		15590
(-2.5) 		7042
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3649
1 2 3 4 range
A 8867.2
(3)
P 		5593.4
(-2.4)
P 		7436.5
(0.6)
P 		5218.6
(-3)
P 		3649
B 7551.4
(3)
P 		6653.8
(-0.8)
P 		6287
(-2.4)
P 		6147.8
(-3)
P 		1404
C 7901.9
(2.8)
P 		7210.2
(1.2)
P 		7968.3
(3)
P 		5383.2
(-3)
P 		2585
avr 8106.8
(3) 		6485.8
(-0.9) 		7230.6
(0.9) 		5583.2
(-3) 		2524

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4233
1 2 3 4 5 6 range
A 4406.3
(-1.6)
P 		6522
(3)
P 		5206.2
(0.1)
P 		4357.1
(-1.8)
P 		4424.5
(-1.6)
P 		3790
(-3)
P 		2732
B 8022.7
(3)
P 		6695.2
(0.3)
P 		5586.5
(-2)
P 		5084.5
(-3)
P 		6176.7
(-0.8)
P 		6068.1
(-1)
P 		2938
C 7149.7
(3)
P 		6290.1
(1.4)
P 		4801.9
(-1.3)
P 		3890.9
(-3)
P 		4937.3
(-1.1)
P 		4998
(-1)
P 		3259
avr 6526.2
(3) 		6502.4
(2.9) 		5198.2
(-0.8) 		4444.2
(-3) 		5179.5
(-0.9) 		4952
(-1.5) 		2082
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173286_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28032
Sequence Type Exemplar sequence
Representative Public ID C37365 NCBI
Target Description C37365_rc /REP_DB=TREMBL Accession /GB=C37365 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk464h3 : 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_059543(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059543 NCBI Caenorhabditis elegans C37A2.7 (C37A2.7) mRNA, complete cds. 11/11 None
GENEFINDER00000014189 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:6796217:6797870:-1 11/11 None
SNAP00000014179 ENSEMBL cdna:SNAP chromosome:CEL140:I:6797296:6797870:-1 11/11 None
C37A2.7.1 ENSEMBL cdna:known chromosome:CEL140:I:6797194:6798155:-1 gene:C37A2.7 11/11 None
C37A2.7.2 ENSEMBL cdna:known chromosome:CEL140:I:6797247:6797872:-1 gene:C37A2.7 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
chrI:6797245-6797777(-) 75.24 75.24
Public Domain and Genome References
Gene Title ribosomal protein
Ensembl C37A2.7
Entrez Gene 172401 Entrez gene
SwissProt O01504 EMBL-EBI
WormBase CE30433 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:16527_AT 60S acidic ribosomal protein P2 (RPP2A) at
ATH1-121501:266258_AT 60S acidic ribosomal protein P2 (RPP2A) at
CANINE:1600273_AT similar to 60S acidic ribosomal protein P2 cfa
CANINE_2:CFA.12459.1.S1_S_AT similar to 60S acidic ribosomal protein P2 cfa
CANINE_2:CFAAFFX.9410.1.S1_AT similar to 60S acidic ribosomal protein P2 cfa
RAE230A:1371340_AT similar to 60S acidic ribosomal protein P2 rn
RAT230_2:1371340_AT similar to 60S acidic ribosomal protein P2 rn
YEAST_2:1775128_AT Ribosomal protein P2 beta, a component of the ribosomal stalk, which is involved in the interaction between translational elongation factors and the ribosome; regulates the accumulation of P1 (Rpp1Ap and Rpp1Bp) in the cytoplasm Sc
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6412 protein biosynthesis inferred from electronic annotation QuickGO AmiGO
6414 translational elongation 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 AAB52451 Hypothetical protein C37A2.6 [Caenorhabditis elegans] ref|NP_491943.1| C37A2.6 [Caenorhabditis elegans] 1.0E-125
blast CAE67314 Hypothetical protein CBG12771 [Caenorhabditis briggsae] 1.0E-99
blast XP_608933 PREDICTED: similar to C37A2.6 [Bos taurus] 4.0E-31
blast AAB52450 Hypothetical protein C37A2.7 [Caenorhabditis elegans] ref|NP_491944.2| C37A2.7 [Caenorhabditis elegans] sp|O01504|RLA2_CAEEL 60S acidic ribosomal protein P2 4.0E-23
blast AAB52450 Hypothetical protein C37A2.7 [Caenorhabditis elegans] ref|NP_491944.2| C37A2.7 [Caenorhabditis elegans] sp|O01504|RLA2_CAEEL 60S acidic ribosomal protein P2 2.0E-21
blast CAE67313 Hypothetical protein CBG12770 [Caenorhabditis briggsae] 4.0E-20
Protein Domains
Database ID Description E-Value
Pfam IPR001813 EMBL-EBI Ribosomal protein 60S 1.8E-33
Pfam IPR001813 EMBL-EBI Ribosomal protein 60S 6.5E-14
Pfam IPR001813 EMBL-EBI Ribosomal protein 60S 6.9E-29
Sequence
Target Sequence 
>C. ELEGANS:173286_S_AT
tcgccaccctcggtggaaatgcctccccatctgcacaagatgtccttaaggtcctcgaag
ccggaggtttcgactgnnnnnnnnnnnnnnnnnnnnncgtcgtcgatgccctcaagggaa
agactatctccgaggttatcgcccagggcaaggtcaagctc

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
TCGCCACCCTCGGTGGAAATGCCTC 416 597 50 Antisense
CTCCCCATCTGCACAAGATGTCCTT 96 235 72 Antisense
GCACAAGATGTCCTTAAGGTCCTCG 473 317 82 Antisense
AGATGTCCTTAAGGTCCTCGAAGCC 13 67 87 Antisense
TGTCCTTAAGGTCCTCGAAGCCGGA 472 557 90 Antisense
TCCTTAAGGTCCTCGAAGCCGGAGG 710 525 92 Antisense
CGTCGTCGATGCCCTCAAGGGAAAG 687 243 147 Antisense
GCCCTCAAGGGAAAGACTATCTCCG 563 283 157 Antisense
AAGACTATCTCCGAGGTTATCGCCC 419 153 169 Antisense
CCGAGGTTATCGCCCAGGGCAAGGT 599 261 179 Antisense
TATCGCCCAGGGCAAGGTCAAGCTC 230 657 186 Antisense
Sequence Source Affymetrix Proprietary Database