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[189875_at] ribosomal protein

Description T23B12.3 /REP_DB=WormBase Gene ID /WP=CE14030 /TR=O17004 /GB=AAB69935.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=ribosomal protein
Cluster 6grp_highest_10_10 > 46      6grp_high1_10_10 > 74      4grp_highest_8_8 > 03      4grp_high_8_8 > 38      6grp_highest_nonorm > 75      6grp_total > 64      4grp_total > 41      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 452
1 2 3 4 range
A 740.9
(-3)
P 		1119.3
(3)
P 		971.1
(0.7)
P 		815.4
(-1.8)
P 		378
B 699.9
(-3)
P 		907.9
(3)
P 		847.4
(1.3)
P 		733.9
(-2)
P 		208
C 667.5
(-3)
P 		823.2
(-0.1)
P 		893.3
(1.2)
P 		986.3
(3)
P 		319
avr 702.8
(-3) 		950.1
(3) 		903.9
(1.9) 		845.2
(0.5) 		247

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 425
1 2 3 4 5 6 range
A 624.5
(-3)
P 		819.7
(0.5)
P 		943.6
(2.8)
P 		956.8
(3)
P 		720.3
(-1.3)
P 		874.3
(1.5)
P 		332
B 911.3
(0.6)
P 		1035.1
(3)
P 		951.7
(1.4)
P 		721.2
(-3)
P 		868.3
(-0.2)
P 		950
(1.4)
P 		314
C 701.1
(-3)
P 		867.4
(-0.1)
P 		1024.7
(2.6)
P 		1026.5
(2.6)
P 		869.9
(-0.1)
P 		1049
(3)
P 		348
avr 745.6
(-3) 		907.4
(1.3) 		973.3
(3) 		901.5
(1.1) 		819.5
(-1.1) 		957.8
(2.6) 		228
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 192
1 2 3 4 range
A 269.8
(3)
P 		243
(1.9)
P 		253.9
(2.4)
P 		119.4
(-3)
P 		150
B 223.2
(2.9)
P 		224.2
(3)
P 		196.4
(0.5)
P 		156.4
(-3)
P 		68
C 221
(-0.7)
P 		236.7
(-0.1)
P 		311.3
(3)
P 		166.3
(-3)
P 		145
avr 238
(2.1) 		234.6
(1.9) 		253.9
(3) 		147.4
(-3) 		107

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 239
1 2 3 4 5 6 range
A 115.1
(-3)
P 		291.5
(3)
P 		205.5
(0.1)
P 		242.7
(1.3)
P 		217.4
(0.5)
P 		212.9
(0.3)
P 		176
B 317.1
(1.6)
P 		344.5
(2.6)
P 		231.1
(-1.5)
P 		191
(-3)
P 		352.8
(2.9)
P 		354.2
(3)
P 		163
C 259.9
(-0.8)
P 		264.7
(-0.6)
P 		260.8
(-0.7)
P 		206.4
(-3)
P 		281.5
(0.1)
P 		351.1
(3)
P 		145
avr 230.7
(-1.9) 		300.2
(2.6) 		232.5
(-1.8) 		213.4
(-3) 		283.9
(1.6) 		306.1
(3) 		93
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189875_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11999
Sequence Type Exemplar sequence
Representative Public ID T23B12.3 NCBI
Target Description T23B12.3 /REP_DB=WormBase Gene ID /WP=CE14030 /TR=O17004 /GB=AAB69935.1 /SUBMIT=ST.LOUIS /CHR=5 /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_072779(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072779 NCBI Caenorhabditis elegans T23B12.3 (T23B12.3) mRNA, complete cds. 11/11 None
SNAP00000042002 ENSEMBL cdna:SNAP chromosome:CEL140:V:8468275:8469615:1 11/11 None
GENEFINDER00000042023 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:8468275:8469615:1 11/11 None
T23B12.3 ENSEMBL cdna:known chromosome:CEL140:V:8468275:8469742:1 gene:T23B12.3 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
chrV:8468275-8469616(+) 100.0 100.0
Public Domain and Genome References
Gene Title ribosomal protein
Ensembl T23B12.3
Entrez Gene 179229 Entrez gene
SwissProt O17004 EMBL-EBI
WormBase CE14030 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFA.4130.1.S1_AT similar to mitochondrial ribosomal protein S2 cfa
CANINE_2:CFAAFFX.30400.1.S1_AT similar to mitochondrial ribosomal protein S2 cfa
DROSOPHILA_2:1629440_AT mitochondrial ribosomal protein S2 dm
DROSGENOME1:145784_AT mitochondrial ribosomal protein S2 dm
HU35KSUBA:RC_AA034202_AT mitochondrial ribosomal protein S2 hs
HG-U133A:218001_AT mitochondrial ribosomal protein S2 hs
HG-U133_PLUS_2:218001_AT mitochondrial ribosomal protein S2 hs
HG-U133A_2:218001_AT mitochondrial ribosomal protein S2 hs
U133_X3P:G7705804_3P_AT mitochondrial ribosomal protein S2 hs
HG-U95B:45299_AT mitochondrial ribosomal protein S2 hs
MG-U74AV2:160423_AT mitochondrial ribosomal protein S2 mm
MOE430A:1420846_AT mitochondrial ribosomal protein S2 mm
MOUSE430A_2:1420846_AT mitochondrial ribosomal protein S2 mm
MOUSE430_2:1420846_AT mitochondrial ribosomal protein S2 mm
MOE430A:1420845_AT mitochondrial ribosomal protein S2 mm
MOUSE430A_2:1420845_AT mitochondrial ribosomal protein S2 mm
MOUSE430_2:1420845_AT mitochondrial ribosomal protein S2 mm
MU19KSUBC:TC37677_AT Mitochondrial ribosomal protein S2 (Mrps2), mRNA mm
MU19KSUBC:TC37677_G_AT Mitochondrial ribosomal protein S2 (Mrps2), mRNA mm
RAE230B:1382782_AT mitochondrial ribosomal protein S2 (predicted) rn
RAT230_2:1382782_AT mitochondrial ribosomal protein S2 (predicted) rn
RAE230B:1393468_AT mitochondrial ribosomal protein S2 (predicted) rn
RAT230_2:1393468_AT mitochondrial ribosomal protein S2 (predicted) rn
YEAST_2:1778452_AT Mitochondrial ribosomal protein of the small subunit 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 AAB69935 Hypothetical protein T23B12.3 [Caenorhabditis elegans] ref|NP_505180.1| T23B12.3 [Caenorhabditis elegans] 1.0E-135
blast CAE58392 Hypothetical protein CBG01521 [Caenorhabditis briggsae] 1.0E-119
blast XP_395329 PREDICTED: similar to CG2937-PA [Apis mellifera] 7.0E-45
Protein Domains
Database ID Description E-Value
Pfam IPR001865 EMBL-EBI Ribosomal protein S2 1.6E-15
Pfam IPR001865 EMBL-EBI Ribosomal protein S2 1.3E-14
Sequence
Target Sequence 
>C. ELEGANS:189875_AT
atgaagtgggccctgtacggtgaacgtcttggagtttgcctcttcgacctcgatattacc
aaaaaatatctcgtcagagctctaaatttcgttgctcatgtgtcattgcgcggtggaatg
attctttttgtcacttccaatcgagacaccatgtttgatgttgagaaggcagcagatgag
gttgggcaatactctcacgttcgaaagtggcaatcaggaactctaacgaacactcgacaa
cttctcggagcttcagttcgacttccagatgctgtctgcttcctgtcaaccctcacatca
ctcggcgaaaaccatccagccatcgttgaagccgcaaaaatggcgattcccacaattgga
gtagttgactcgaattcggatccggcttact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGAAGTGGGCCCTGTACGGTGAAC 420 1 295 Antisense
TGAACGTCTTGGAGTTTGCCTCTTC 29 571 315 Antisense
TGCCTCTTCGACCTCGATATTACCA 131 585 331 Antisense
TTTCGTTGCTCATGTGTCATTGCGC 458 669 381 Antisense
GAATGATTCTTTTTGTCACTTCCAA 8 333 410 Antisense
TCACTTCCAATCGAGACACCATGTT 268 627 425 Antisense
GAGGTTGGGCAATACTCTCACGTTC 476 401 472 Antisense
ACACTCGACAACTTCTCGGAGCTTC 292 111 524 Antisense
CAGTTCGACTTCCAGATGCTGTCTG 178 207 548 Antisense
CACTCGGCGAAAACCATCCAGCCAT 652 195 593 Antisense
GACTCGAATTCGGATCCGGCTTACT 377 375 661 Antisense
Sequence Source Affymetrix Proprietary Database