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[171976_x_at]

Description AV200679_rc /REP_DB=TREMBL Accession /GB=AV200679 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk578h9 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 0      6grp_high1_10_10 > 08      4grp_highest_8_8 > 31      4grp_high_8_8 > 05      6grp_highest_nonorm > 12      6grp_total > 09      4grp_total > 03      6grp_cgc > 10      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1986
1 2 3 4 range
A 3276.7
(0.8)
P 		2470.5
(-3)
P 		2554.9
(-2.6)
P 		3754.7
(3)
P 		1284
B 2429.1
(-0.8)
P 		3158.6
(1.7)
P 		1768.3
(-3)
P 		3540
(3)
P 		1772
C 2518.5
(-1.7)
P 		2302.5
(-3)
P 		3309.1
(3)
P 		3281.8
(2.8)
P 		1007
avr 2741.4
(-1.8) 		2643.9
(-2.4) 		2544.1
(-3) 		3525.5
(3) 		981

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1883
1 2 3 4 5 6 range
A 3277.3
(3)
P 		1604.7
(-2.8)
P 		1639.5
(-2.7)
P 		1798.1
(-2.1)
P 		1725.4
(-2.4)
P 		1542.5
(-3)
P 		1735
B 2451.3
(3)
P 		2171.5
(1.4)
P 		1852.4
(-0.5)
P 		2125.2
(1.1)
P 		1738.5
(-1.1)
P 		1410.9
(-3)
P 		1040
C 2149.5
(2.1)
P 		1980.8
(0.9)
P 		1936
(0.6)
P 		2276.9
(2.9)
P 		2288.3
(3)
P 		1394.7
(-3)
P 		894
avr 2626
(3) 		1919
(-0.6) 		1809.3
(-1.2) 		2066.7
(0.1) 		1917.4
(-0.6) 		1449.4
(-3) 		1177
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 783
1 2 3 4 range
A 1193.1
(3)
P 		536.3
(-3)
P 		667.9
(-1.8)
P 		549.6
(-2.9)
P 		657
B 774.6
(2.9)
P 		780.1
(3)
P 		409.7
(-3)
P 		754.4
(2.6)
P 		370
C 833.7
(-0.2)
P 		662
(-1.9)
P 		1153.3
(3)
P 		553.4
(-3)
P 		600
avr 933.8
(3) 		659.5
(-2.2) 		743.6
(-0.6) 		619.1
(-3) 		315

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 496
1 2 3 4 5 6 range
A 604.1
(3)
P 		570.7
(2.2)
P 		357
(-3)
P 		456
(-0.6)
P 		520.7
(1)
P 		375.5
(-2.6)
P 		247
B 852.9
(3)
P 		722.8
(1.1)
P 		449.8
(-3)
P 		562.9
(-1.3)
P 		706.3
(0.8)
P 		526.1
(-1.9)
P 		403
C 796.7
(3)
P 		604.4
(-0.4)
P 		492.8
(-2.4)
P 		457.9
(-3)
P 		740.5
(2)
P 		466.9
(-2.8)
P 		339
avr 751.2
(3) 		632.6
(0.8) 		433.2
(-3) 		492.3
(-1.9) 		655.8
(1.2) 		456.2
(-2.6) 		318
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171976_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28065
Sequence Type Exemplar sequence
Representative Public ID AV200679 NCBI
Target Description AV200679_rc /REP_DB=TREMBL Accession /GB=AV200679 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk578h9 : 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 Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_170948
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
GENEFINDER00000013489 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:14476597:14477491:-1 None
NM_170948 NCBI Caenorhabditis elegans Ribosomal Protein, Small subunit family member (rps-20) (rps-20) mRNA, complete cds. None
Y105E8A.16.3 ENSEMBL cdna:known chromosome:CEL140:I:14476359:14477472:-1 gene:Y105E8A.16 None
Y105E8A.16.5 ENSEMBL cdna:known chromosome:CEL140:I:14476439:14477226:-1 gene:Y105E8A.16 None
Y105E8A.16.1 ENSEMBL cdna:known chromosome:CEL140:I:14476439:14477221:-1 gene:Y105E8A.16 A 
Y105E8A.16.2 ENSEMBL cdna:known chromosome:CEL140:I:14476439:14477472:-1 gene:Y105E8A.16 A 
Y105E8A.16.4 ENSEMBL cdna:known chromosome:CEL140:I:14476439:14477454:-1 gene:Y105E8A.16 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:14476468-14476797(-) 88.24 88.24
Public Domain and Genome References
Gene Title
Gene Symbol rps-20
Ensembl Y105E8A.16
Entrez Gene 173309 Entrez gene
SwissProt Q8WQA8 EMBL-EBI
WormBase CE29835 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:13079_AT 40S ribosomal protein S20 (RPS20B) at
ATH1-121501:252413_AT 40S ribosomal protein S20 (RPS20B) at
CANINE:1583286_AT similar to 40S ribosomal protein S20 cfa
CANINE_2:CFA.16493.1.A1_AT similar to 40S ribosomal protein S20 cfa
CANINE_2:CFA.732.1.S1_S_AT similar to 40S ribosomal protein S20 cfa
CANINE_2:CFA.732.1.S1_X_AT similar to 40S ribosomal protein S20 cfa
CANINE_2:CFAAFFX.11450.1.S1_AT similar to 40S ribosomal protein S20 cfa
CANINE_2:CFAAFFX.386.1.S1_S_AT similar to 40S ribosomal protein S20 cfa
CANINE_2:CFAAFFX.386.1.S1_X_AT similar to 40S ribosomal protein S20 cfa
CANINE_2:CFAAFFX.8139.1.S1_X_AT similar to 40S ribosomal protein S20 cfa
DROSOPHILA_2:1641614_AT Ribosomal protein S20 dm
DROSGENOME1:143904_AT Ribosomal protein S20 dm
CHICKEN:GGAAFFX.20653.1.S1_S_AT similar to putative 40S ribosomal protein 20S protein gga
HG-U133_PLUS_2:200949_X_AT ribosomal protein S20 hs
HG-U133A:200949_X_AT ribosomal protein S20 hs
HG-U133A_2:200949_X_AT ribosomal protein S20 hs
HG-U133_PLUS_2:214003_X_AT ribosomal protein S20 hs
HG-U133A_2:214003_X_AT ribosomal protein S20 hs
HG-U133A:214003_X_AT ribosomal protein S20 hs
HU35KSUBC:RC_T64346_F_AT ribosomal protein S20 hs
HU35KSUBC:RC_T64346_I_AT ribosomal protein S20 hs
HU35KSUBD:RC_D51294_S_AT ribosomal protein S20 hs
U133_X3P:HS.8102.1.S1_3P_X_AT ribosomal protein S20 hs
HG-U95AV2:32438_AT ribosomal protein S20 hs
HG-U95C:64509_I_AT ribosomal protein S20 hs
HUGENEFL:U67849_AT Ribosomal protein S20 hs
HG-U95C:54825_AT Ribosomal protein S20 hs
HG-U95E:70911_AT Ribosomal protein S20 hs
HG-U95E:75080_AT Ribosomal protein S20 hs
HG-U95E:80080_AT Ribosomal protein S20 hs
HG-U95D:89710_R_AT Ribosomal protein S20 hs
HU35KSUBD:RC_AA419429_AT Ribosomal protein S20 hs
MOE430A:1456373_X_AT ribosomal protein S20 mm
MOUSE430A_2:1456373_X_AT ribosomal protein S20 mm
MOUSE430_2:1456373_X_AT ribosomal protein S20 mm
MOE430A:1450417_A_AT ribosomal protein S20 mm
MOUSE430_2:1450417_A_AT ribosomal protein S20 mm
MOUSE430A_2:1450417_A_AT ribosomal protein S20 mm
MOUSE430_2:1421935_AT ribosomal protein S20 mm
MOE430A:1421935_AT ribosomal protein S20 mm
MOUSE430A_2:1421935_AT ribosomal protein S20 mm
MG-U74CV2:167494_F_AT ribosomal protein S20 mm
MG-U74CV2:171542_AT ribosomal protein S20 mm
MOE430A:1456436_X_AT ribosomal protein S20 mm
MOUSE430A_2:1456436_X_AT ribosomal protein S20 mm
MOUSE430_2:1456436_X_AT ribosomal protein S20 mm
MU19KSUBA:TC22259_AT Ribosomal protein S20, mRNA (cDNA clone MGC:7167 IMAGE:3257215) mm
MU19KSUBB:TC34621_AT Ribosomal protein S20, mRNA (cDNA clone MGC:7167 IMAGE:3257215) mm
RG-U34B:RC_AI012647_AT ribosomal protein S20 rn
RAE230A:1371295_AT ribosomal protein S20 rn
RAT230_2:1371295_AT ribosomal protein S20 rn
YEAST_2:1775832_AT Protein component of the small (40S) ribosomal subunit; overproduction suppresses mutations affecting RNA polymerase III-dependent transcription; has similarity to E. coli S10 and rat S20 ribosomal proteins 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
15935 small ribosomal subunit 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 CAD21665 Hypothetical protein Y105E8A.16 [Caenorhabditis elegans] ref|NP_740944.1| Ribosomal Protein, Small subunit family member (rps-20) [Caenorhabditis elegans] 3.0E-61
blast CAD21665 Hypothetical protein Y105E8A.16 [Caenorhabditis elegans] ref|NP_740944.1| Ribosomal Protein, Small subunit family member (rps-20) [Caenorhabditis elegans] 1.0E-60
blast CAE64138 Hypothetical protein CBG08754 [Caenorhabditis briggsae] 2.0E-59
blast CAE64138 Hypothetical protein CBG08754 [Caenorhabditis briggsae] 3.0E-59
Protein Domains
Database ID Description E-Value
Pfam IPR001848 EMBL-EBI Ribosomal protein S10 6.2E-60
Pfam IPR001848 EMBL-EBI Ribosomal protein S10 6.2E-60
Sequence
Target Sequence 
>C. ELEGANS:171976_X_AT
tccgcatgccgaccaaggtgttcggcatcaccacccgcaagaccccatgcggagagggat
ccaagacntgggatcgattccagatgcgcatccacaagcgtctcatcaacctccacgctc
cagctgaggtcctccgccaaatcacttcgatcnnnnnnnnnnnnnnnnnnnnnnnnnnnn
nnnnnnnnnnnnnnnnnncaccttggtgcggctgcagacgggtatccggctcagacgtta
catacatgcacgacttct

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
TCCGCATGCCGACCAAGGTGTTCGG 226 595 31 Antisense
CGACCAAGGTGTTCGGCATCACCAC 301 251 40 Antisense
CACCCGCAAGACCCCATGCGGAGAG 96 201 62 Antisense
GACCCCATGCGGAGAGGGATCCAAG 368 381 71 Antisense
GGGATCGATTCCAGATGCGCATCCA 697 495 100 Antisense
ATTCCAGATGCGCATCCACAAGCGT 556 7 107 Antisense
GGTATCCGGCTCAGACGTTACATAC 541 503 251 Antisense
TATCCGGCTCAGACGTTACATACAT 521 657 253 Antisense
TCCGGCTCAGACGTTACATACATGC 85 585 255 Antisense
CGGCTCAGACGTTACATACATGCAC 53 243 257 Antisense
GACGTTACATACATGCACGACTTCT 684 377 264 Antisense
Sequence Source Affymetrix Proprietary Database