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[174300_s_at] 40S ribosomal protein S29

Description CEK107E8F /REP_DB=TREMBL Accession /GB=D75625 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk107e8 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 36      6grp_high1_10_10 > 40      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 18      6grp_total > 51      4grp_total > 17      6grp_highest_sub > 03      6grp_cgc > 93      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18414
1 2 3 4 range
A 21725
(-3)
P 		28511.9
(-0.6)
P 		25017.9
(-1.8)
P 		38533.2
(3)
P 		16808
B 24167
(-1.6)
P 		23399.2
(-3)
P 		26642.9
(3)
P 		24005.4
(-1.9)
P 		3244
C 20858.2
(-2.7)
P 		23411.5
(-1.6)
P 		20119.1
(-3)
P 		34352.8
(3)
P 		14234
avr 22250.1
(-3) 		25107.5
(-1.3) 		23926.6
(-2) 		32297.1
(3) 		10047

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7009
1 2 3 4 5 6 range
A 16594.8
(-1.1)
P 		16923.2
(-0.8)
P 		21068.4
(3)
P 		18331.9
(0.5)
P 		14485.5
(-3)
P 		16899.1
(-0.8)
P 		6583
B 16129.5
(2.5)
P 		15983.4
(2.1)
P 		16327.9
(3)
P 		16239.6
(2.8)
P 		14617.1
(-1.5)
P 		14059.5
(-3)
P 		2268
C 17055.2
(-1.4)
P 		16309.2
(-3)
P 		18215.2
(1)
P 		19170.3
(3)
P 		16871.2
(-1.8)
P 		17736.3
(-0)
P 		2861
avr 16593.2
(-0.6) 		16405.3
(-1) 		18537.2
(3) 		17913.9
(1.8) 		15324.6
(-3) 		16231.6
(-1.3) 		3213
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2795
1 2 3 4 range
A 7910.1
(3)
P 		6189.2
(-1.5)
P 		6540.2
(-0.6)
P 		5640.5
(-3)
P 		2270
B 7706.7
(3)
P 		5779.1
(-1.5)
P 		6173.8
(-0.5)
P 		5115.6
(-3)
P 		2591
C 6904.6
(2.5)
P 		6730.9
(1.6)
P 		7012.1
(3)
P 		5792.4
(-3)
P 		1220
avr 7507.1
(3) 		6233.1
(-0.8) 		6575.4
(0.2) 		5516.2
(-3) 		1991

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3263
1 2 3 4 5 6 range
A 3059.1
(-3)
P 		6018.7
(3)
P 		4588.3
(0.1)
P 		4649.4
(0.2)
P 		4371.1
(-0.3)
P 		4114.4
(-0.9)
P 		2960
B 5612.3
(2)
P 		5320.2
(1.1)
P 		3964.9
(-3)
P 		4301.3
(-2)
P 		5938.7
(3)
P 		5242.7
(0.9)
P 		1974
C 6321.6
(3)
P 		4976.4
(-0.3)
P 		4636.1
(-1.1)
P 		3855.2
(-3)
P 		5459.3
(0.9)
P 		5937.4
(2.1)
P 		2466
avr 4997.7
(0.7) 		5438.4
(3) 		4396.4
(-2.3) 		4268.6
(-3) 		5256.4
(2.1) 		5098.2
(1.3) 		1170
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174300_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21237
Sequence Type Exemplar sequence
Representative Public ID CEK107E8F NCBI
Target Description CEK107E8F /REP_DB=TREMBL Accession /GB=D75625 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk107e8 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Genomic 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_064862(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064862 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-29) (rps-29) mRNA, complete cds. 11/11 None
B0412.4.4 ENSEMBL cdna:known chromosome:CEL140:III:794289:795076:1 gene:B0412.4 11/11 None
B0412.4.2 ENSEMBL cdna:known chromosome:CEL140:III:794289:795076:1 gene:B0412.4 11/11 None
B0412.4.3 ENSEMBL cdna:known chromosome:CEL140:III:794292:795287:1 gene:B0412.4 11/11 None
B0412.4.1 ENSEMBL cdna:known chromosome:CEL140:III:794294:795076:1 gene:B0412.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000002842 7/11 Cross Hyb Matching Probes None
GENEFINDER00000002848 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:794298-795043(+) 100.0 100.0
Public Domain and Genome References
Gene Title 40S ribosomal protein S29
Gene Symbol rps-29
Ensembl B0412.4
Entrez Gene 175235 Entrez gene
SwissProt P90983 EMBL-EBI
WormBase CE26849 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1599429_AT similar to 40S ribosomal protein S29 cfa
CANINE:1592359_X_AT similar to 40S ribosomal protein S29 cfa
CANINE:1591526_S_AT similar to 40S ribosomal protein S29 cfa
CANINE_2:CFA.739.1.S1_AT similar to 40S ribosomal protein S29 cfa
CANINE_2:CFAAFFX.12225.1.S1_S_AT similar to 40S ribosomal protein S29 cfa
CANINE_2:CFAAFFX.12225.1.S1_X_AT similar to 40S ribosomal protein S29 cfa
CANINE_2:CFAAFFX.16064.1.S1_X_AT similar to 40S ribosomal protein S29 cfa
CANINE_2:CFAAFFX.21865.1.S1_X_AT similar to 40S ribosomal protein S29 cfa
CANINE_2:CFAAFFX.5314.1.S1_X_AT similar to 40S ribosomal protein S29 cfa
DROSGENOME1:149586_AT Ribosomal protein S29 dm
DROSOPHILA_2:1625248_AT Ribosomal protein S29 dm
DROSOPHILA_2:1629867_A_AT Ribosomal protein S29 dm
DROSOPHILA_2:1626693_AT Ribosomal protein S29 dm
CHICKEN:GGA.9296.1.S1_A_AT similar to ribosomal protein S29 gga
HG-U133A:201094_AT ribosomal protein S29 hs
HG-U133_PLUS_2:201094_AT ribosomal protein S29 hs
HG-FOCUS:201094_AT ribosomal protein S29 hs
HG-U133A_2:201094_AT ribosomal protein S29 hs
HG-U95AV2:35278_AT ribosomal protein S29 hs
HUGENEFL:U14973_AT ribosomal protein S29 hs
U133_X3P:G4506716_3P_AT ribosomal protein S29 hs
MOE430A:1415833_X_AT ribosomal protein S29 mm
MOUSE430_2:1415833_X_AT ribosomal protein S29 mm
MOUSE430A_2:1415833_X_AT ribosomal protein S29 mm
MOUSE430A_2:1438859_X_AT ribosomal protein S29 mm
MOUSE430_2:1438859_X_AT ribosomal protein S29 mm
MOE430A:1438859_X_AT ribosomal protein S29 mm
MU11KSUBA:L31609_S_AT ribosomal protein S29 mm
MG-U74AV2:162335_AT ribosomal protein S29 mm
MOE430A:1437413_X_AT ribosomal protein S29 mm
MOUSE430A_2:1437413_X_AT ribosomal protein S29 mm
MOUSE430_2:1437413_X_AT ribosomal protein S29 mm
MG-U74AV2:98523_AT ribosomal protein S29 mm
RT-U34:X59051CDS_S_AT ribosomal protein S29 rn
RG-U34A:X59051CDS_S_AT ribosomal protein S29 rn
RG-U34A:RC_AA965264_AT ribosomal protein S29 rn
RAE230A:1387890_AT ribosomal protein S29 rn
RAT230_2:1387890_AT ribosomal protein S29 rn
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 AAB52557 Ribosomal protein, small subunit protein 29 [Caenorhabditis elegans] ref|NP_497263.1| Ribosomal Protein, Small subunit family member (rps-29) [Caenorhabditis elegans] 7.0E-29
blast CAE69246 Hypothetical protein CBG15290 [Caenorhabditis briggsae] 2.0E-27
Sequence
Target Sequence 
>C. ELEGANS:174300_S_AT
aaaatttgtggttctctcacccacgcaagttcggaccaggatcccgctcctgccgcgtct
gcgctggacaccacggacttatccgcaagtacggcctcgatctctgccgtagatgcttcc
gcgagcaagccagagacatcggattcaagaagcttgattgagcaaccagcgtccacgtct
gcaaccgcctcgtcaaatcttgttattgttaacttcatgtcttcaatcaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAATTTGTGGTTCTCTCACCCACG 634 133 27 Antisense
CACGCAAGTTCGGACCAGGATCCCG 422 199 48 Antisense
TGGACACCACGGACTTATCCGCAAG 59 547 91 Antisense
TTATCCGCAAGTACGGCCTCGATCT 256 679 105 Antisense
TGCTTCCGCGAGCAAGCCAGAGACA 139 579 140 Antisense
GCAAGCCAGAGACATCGGATTCAAG 157 321 151 Antisense
GCCAGAGACATCGGATTCAAGAAGC 108 281 155 Antisense
AACCGCCTCGTCAAATCTTGTTATT 53 147 209 Antisense
GCCTCGTCAAATCTTGTTATTGTTA 300 281 213 Antisense
GTTATTGTTAACTTCATGTCTTCAA 97 449 228 Antisense
TGTTAACTTCATGTCTTCAATCAAT 15 561 233 Antisense
Sequence Source Affymetrix Proprietary Database