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[173246_s_at] ribosomal protein

Description C45748 /REP_DB=TREMBL Accession /GB=C45748 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk401e12 : 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 > 25      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 21424
1 2 3 4 range
A 28543.4
(-3)
P 		40244.7
(0.5)
P 		33465.1
(-1.5)
P 		48531
(3)
P 		19988
B 29274.3
(-3)
P 		32871.9
(-0.6)
P 		38315.5
(3)
P 		36491.6
(1.8)
P 		9041
C 27107.3
(-3)
P 		30402.6
(-1.7)
P 		29071.2
(-2.2)
P 		41779.1
(3)
P 		14672
avr 28308.3
(-3) 		34506.4
(-0.3) 		33617.3
(-0.7) 		42267.2
(3) 		13959

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10200
1 2 3 4 5 6 range
A 30108.5
(1.6)
P 		23960.9
(-3)
P 		32067.5
(3)
P 		25984.8
(-1.5)
P 		23911.8
(-3)
P 		24853.3
(-2.3)
P 		8156
B 24891.8
(-1.1)
P 		24724.7
(-1.2)
P 		31226.1
(3)
P 		24304.8
(-1.4)
P 		22854.5
(-2.4)
P 		21867.5
(-3)
P 		9359
C 23135
(-2.9)
P 		25536.2
(0.3)
P 		26474.1
(1.5)
P 		27629.7
(3)
P 		23563.6
(-2.3)
P 		23045.5
(-3)
P 		4584
avr 26045.1
(-0.5) 		24740.6
(-1.7) 		29922.6
(3) 		25973.1
(-0.6) 		23443.3
(-2.8) 		23255.4
(-3) 		6667
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3348
1 2 3 4 range
A 10392.7
(3)
P 		8736
(-0)
P 		8748.4
(0)
P 		7104
(-3)
P 		3289
B 9335.3
(3)
P 		8118.6
(-1.7)
P 		8878.6
(1.2)
P 		7776.4
(-3)
P 		1559
C 8973.3
(0.7)
P 		8740.9
(0.3)
P 		10132.2
(3)
P 		7044.6
(-3)
P 		3088
avr 9567.1
(3) 		8531.8
(0.2) 		9253.1
(2.2) 		7308.3
(-3) 		2259

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3735
1 2 3 4 5 6 range
A 5550.3
(-3)
P 		8521.7
(3)
P 		6983.6
(-0.1)
P 		6590.3
(-0.9)
P 		7215.5
(0.4)
P 		6051
(-2)
P 		2971
B 8661.1
(1.7)
P 		8229.8
(0.8)
P 		7582.6
(-0.6)
P 		6437.5
(-3)
P 		9285.5
(3)
P 		8154.3
(0.6)
P 		2848
C 8575.2
(3)
P 		7791.9
(1.4)
P 		6738.1
(-0.7)
P 		5556.4
(-3)
P 		7624.8
(1.1)
P 		7714.7
(1.3)
P 		3019
avr 7595.5
(1.2) 		8181.1
(3) 		7101.4
(-0.3) 		6194.7
(-3) 		8041.9
(2.6) 		7306.7
(0.4) 		1986
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173246_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27742
Sequence Type Exemplar sequence
Representative Public ID C45748 NCBI
Target Description C45748 /REP_DB=TREMBL Accession /GB=C45748 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk401e12 : 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_070733(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070733 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-27) (rps-27) mRNA, complete cds. 11/11 None
SNAP00000024059 ENSEMBL cdna:SNAP chromosome:CEL140:V:103298:103892:-1 11/11 None
GENEFINDER00000024061 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:103298:103864:-1 11/11 None
F56E10.4.1 ENSEMBL cdna:known chromosome:CEL140:V:103213:103892:-1 gene:F56E10.4 11/11 None
F56E10.4.2 ENSEMBL cdna:known chromosome:CEL140:V:103213:103898:-1 gene:F56E10.4 11/11 None
F56E10.4.3 ENSEMBL cdna:known chromosome:CEL140:V:103213:104042:-1 gene:F56E10.4 11/11 None
F56E10.4.4 ENSEMBL cdna:known chromosome:CEL140:V:103215:103898:-1 gene:F56E10.4 11/11 None
F56E10.4.5 ENSEMBL cdna:known chromosome:CEL140:V:103215:104042:-1 gene:F56E10.4 11/11 None
F56E10.4.6 ENSEMBL cdna:known chromosome:CEL140:V:103215:104042:-1 gene:F56E10.4 11/11 None
F56E10.4.7 ENSEMBL cdna:known chromosome:CEL140:V:103215:103892:-1 gene:F56E10.4 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:103261-103894(-) 73.21 73.21
Public Domain and Genome References
Gene Title ribosomal protein
Gene Symbol rps-27
Ensembl F56E10.4
Entrez Gene 178538 Entrez gene
SwissProt Q9TXP0 EMBL-EBI
WormBase CE19904 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:248747_AT 40S ribosomal protein S27 (RPS27D) at
CANINE:1584580_S_AT similar to ribosomal protein S27 cfa
CANINE:1592047_S_AT similar to ribosomal protein S27 cfa
CANINE_2:CFA.3187.2.A1_S_AT similar to ribosomal protein S27 cfa
CANINE_2:CFA.3187.4.A1_AT similar to ribosomal protein S27 cfa
CANINE_2:CFA.3187.4.A1_X_AT similar to ribosomal protein S27 cfa
CANINE_2:CFAAFFX.656.1.S1_X_AT similar to ribosomal protein S27 cfa
CANINE_2:CFAAFFX.658.1.S1_X_AT similar to ribosomal protein S27 cfa
DROSOPHILA_2:1631296_AT Ribosomal protein S27 dm
DROSGENOME1:150567_AT Ribosomal protein S27 dm
HG-U95AV2:32748_AT ribosomal protein S27 (metallopanstimulin 1) hs
HG-U133_PLUS_2:200741_S_AT ribosomal protein S27 (metallopanstimulin 1) hs
HG-U133A:200741_S_AT ribosomal protein S27 (metallopanstimulin 1) hs
HG-FOCUS:200741_S_AT ribosomal protein S27 (metallopanstimulin 1) hs
HG-U133A_2:200741_S_AT ribosomal protein S27 (metallopanstimulin 1) hs
HU35KSUBA:U57847_S_AT ribosomal protein S27 (metallopanstimulin 1) hs
HUGENEFL:M31520_RNA1_S_AT ribosomal protein S27 (metallopanstimulin 1) hs
U133_X3P:G4506710_3P_A_AT ribosomal protein S27 (metallopanstimulin 1) hs
U133_X3P:HS.40838.0.A1_3P_AT ribosomal protein S27 (metallopanstimulin 1) hs
HG-U133_PLUS_2:236621_AT ribosomal protein S27 (metallopanstimulin 1) hs
HG-U133B:236621_AT ribosomal protein S27 (metallopanstimulin 1) hs
HU35KSUBB:RC_AA136242_AT Tetraspanin 9 hs
U133_X3P:HS2.356303.1.A1_3P_AT Tetraspanin 9 hs
HG-U133_PLUS_2:1556383_AT Tetraspanin 9 hs
HG-U95C:53113_AT Tetraspanin 9 hs
HG-U95E:68792_AT Tetraspanin 9 hs
MG-U74AV2:96301_AT ribosomal protein S27 mm
MU11KSUBA:AA036204_S_AT ribosomal protein S27 mm
MG-U74AV2:96300_F_AT ribosomal protein S27 mm
MOE430A:1415716_A_AT ribosomal protein S27 mm
MOE430B:1415716_A_AT ribosomal protein S27 mm
MOUSE430A_2:1415716_A_AT ribosomal protein S27 mm
MOUSE430_2:1415716_A_AT ribosomal protein S27 mm
MOE430A:1460699_AT ribosomal protein S27 mm
MOUSE430A_2:1460699_AT ribosomal protein S27 mm
MOUSE430_2:1460699_AT ribosomal protein S27 mm
RG-U34C:AA851135_AT ribosomal protein S27 rn
RAE230A:1367717_AT ribosomal protein S27 rn
RAT230_2:1367717_AT ribosomal protein S27 rn
YEAST_2:1779727_AT Protein component of the small (40S) ribosomal subunit; nearly identical to Rps27Ap and has similarity to rat S27 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 AAC69219 Ribosomal protein, small subunit protein 27 [Caenorhabditis elegans] ref|NP_503134.1| Ribosomal Protein, Small subunit family member (rps-27) [Caenorhabditis elegans] 1.0E-33
Protein Domains
Database ID Description E-Value
Pfam IPR000592 EMBL-EBI Ribosomal protein S27E 5.2E-28
Pfam IPR000592 EMBL-EBI Ribosomal protein S27E 5.2E-28
Sequence
Target Sequence 
>C. ELEGANS:173246_S_AT
cttcttcacccagagccacaaagggagatcagatgccacaagcttaagcgtcttgttcaa
cacccaaactcctacttcatggacgttaagtgctcgggatgcttcaagatttcgaccgtc
ttctcgcacgccaccaccgtcgtcgtctgcgttggatgcaacaccgtcctctgccagcca
acccgaggaaaggccaagctcaccgagggatgctccttccgcaagaagcaat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTTCTTCACCCAGAGCCACAAAGGG 288 221 113 Antisense
GCCACAAAGGGAGATCAGATGCCAC 391 277 127 Antisense
CAGATGCCACAAGCTTAAGCGTCTT 335 205 142 Antisense
TAAGCGTCTTGTTCAACACCCAAAC 98 639 157 Antisense
ACCCAAACTCCTACTTCATGGACGT 65 91 174 Antisense
GGACGTTAAGTGCTCGGGATGCTTC 259 521 193 Antisense
GGATGCTTCAAGATTTCGACCGTCT 706 513 209 Antisense
GTCGTCTGCGTTGGATGCAACACCG 356 473 254 Antisense
TCTGCCAGCCAACCCGAGGAAAGGC 76 609 282 Antisense
CGAGGAAAGGCCAAGCTCACCGAGG 473 249 296 Antisense
GGATGCTCCTTCCGCAAGAAGCAAT 487 513 320 Antisense
Sequence Source Affymetrix Proprietary Database