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[173087_s_at] Ribosomal protein L9

Description CEK069GYR_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=D65848 /DEF=C.elegans cDNA clone yk69g11 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 31      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 28      6grp_total > 42      4grp_total > 17      6grp_cgc > 81      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 7215
1 2 3 4 range
A 13522.4
(-3)
P 		18421.8
(2.1)
P 		15106.2
(-1.4)
P 		19324.3
(3)
P 		5802
B 12746.1
(-3)
P 		13840.7
(-1.7)
P 		15763.3
(0.6)
P 		17763.6
(3)
P 		5018
C 12549.7
(-3)
P 		13975.9
(-1.8)
P 		14033.7
(-1.8)
P 		19764.6
(3)
P 		7215
avr 12939.4
(-3) 		15412.8
(-0.5) 		14967.7
(-1) 		18950.8
(3) 		6011

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4043
1 2 3 4 5 6 range
A 10224
(-0.5)
P 		10841.3
(0.6)
P 		12167.5
(3)
P 		9913.1
(-1)
P 		8800.7
(-3)
P 		9650.3
(-1.5)
P 		3367
B 8896.8
(-2.4)
P 		10272.5
(1.5)
P 		10806.2
(3)
P 		9445.5
(-0.9)
P 		9413.2
(-1)
P 		8697.7
(-3)
P 		2109
C 11500.4
(3)
P 		10003.7
(0.3)
P 		11051.8
(2.2)
P 		9672
(-0.2)
P 		11317.2
(2.7)
P 		8124.7
(-3)
P 		3376
avr 10207.1
(0.3) 		10372.5
(0.7) 		11341.8
(3) 		9676.9
(-1) 		9843.7
(-0.6) 		8824.2
(-3) 		2518
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2095
1 2 3 4 range
A 4923.5
(3)
P 		3998.9
(0.4)
P 		3949
(0.2)
P 		2828.7
(-3)
P 		2095
B 4064.6
(3)
P 		3418.3
(-3)
P 		3652.7
(-0.8)
P 		3785.4
(0.4)
P 		646
C 4154.3
(0.2)
P 		4018.1
(-0.4)
P 		4891.2
(3)
P 		3332.6
(-3)
P 		1559
avr 4380.8
(3) 		3811.8
(-0.2) 		4164.3
(1.8) 		3315.6
(-3) 		1065

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2378
1 2 3 4 5 6 range
A 1884.7
(-3)
P 		3855.7
(3)
P 		2649.8
(-0.7)
P 		2514.2
(-1.1)
P 		2655.7
(-0.7)
P 		2349.5
(-1.6)
P 		1971
B 3095.6
(-0.3)
P 		3419.3
(1.2)
P 		2624.1
(-2.4)
P 		2501.8
(-3)
P 		3824.5
(3)
P 		3243.3
(0.4)
P 		1323
C 4262.7
(3)
P 		3052.4
(-0.1)
P 		2812.9
(-0.8)
P 		1945
(-3)
P 		3662.1
(1.4)
P 		2719.8
(-1)
P 		2318
avr 3081
(1.1) 		3442.5
(3) 		2695.6
(-1) 		2320.3
(-3) 		3380.8
(2.7) 		2770.9
(-0.6) 		1122
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173087_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27428
Sequence Type Exemplar sequence
Representative Public ID CEK069GYR NCBI
Target Description CEK069GYR_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=D65848 /DEF=C.elegans cDNA clone yk69g11 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_066259(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066259 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-9) (rpl-9) mRNA, complete cds. 11/11 A 
SNAP00000038247 ENSEMBL cdna:SNAP chromosome:CEL140:III:7572063:7572733:-1 11/11 None
GENEFINDER00000038261 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7572063:7572733:-1 11/11 None
R13A5.8.3 ENSEMBL cdna:known chromosome:CEL140:III:7571703:7572751:-1 gene:R13A5.8 11/11 None
R13A5.8.1 ENSEMBL cdna:known chromosome:CEL140:III:7571703:7572749:-1 gene:R13A5.8 11/11 A 
R13A5.8.2 ENSEMBL cdna:known chromosome:CEL140:III:7572023:7572751:-1 gene:R13A5.8 11/11 A 
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
chrIII:7572046-7572447(-) 90.3 90.3
Public Domain and Genome References
Gene Title Ribosomal protein L9
Gene Symbol rpl-9
Ensembl R13A5.8
Entrez Gene 176071 Entrez gene
SwissProt Q95Y90 EMBL-EBI
WormBase CE01380 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:261620_S_AT 60S ribosomal protein L9 (RPL90B) at
ATGENOME1:16469_AT 60S ribosomal protein L9 (RPL90A/C) at
CANINE:1602233_AT similar to ribosomal protein L9 cfa
CANINE_2:CFA.312.1.S1_S_AT similar to ribosomal protein L9 cfa
CANINE_2:CFAAFFX.1900.1.S1_AT similar to ribosomal protein L9 cfa
DROSOPHILA_2:1630634_S_AT Ribosomal protein L9 dm
DROSGENOME1:143838_AT Ribosomal protein L9 dm
CHICKEN:GGA.4776.1.S2_AT similar to ribosomal protein L9; 60S ribosomal protein L9 gga
CHICKEN:GGA.11486.1.S1_AT ribosomal protein L9 gga
CHICKEN:GGA.4776.1.S1_A_AT ribosomal protein L9 gga
CHICKEN:GGA.4776.1.S2_AT ribosomal protein L9 gga
CHICKEN:GGA.13605.1.A1_AT Similar to ribosomal protein L9; 60S ribosomal protein L9 gga
PLASMODIUM_ANOPHELES:200032_S_AT ribosomal protein L9 hs
HG-U133_PLUS_2:200032_S_AT ribosomal protein L9 hs
HG-FOCUS:200032_S_AT ribosomal protein L9 hs
HG-U133A:200032_S_AT ribosomal protein L9 hs
HG-U133B:200032_S_AT ribosomal protein L9 hs
HG-U133A_2:200032_S_AT ribosomal protein L9 hs
U133_X3P:200032_S_AT ribosomal protein L9 hs
HUGENEFL:U09953_AT ribosomal protein L9 hs
U133_X3P:G4506664_3P_A_AT ribosomal protein L9 hs
HG-U95AV2:36358_AT ribosomal protein L9 hs
HG-U95E:80574_S_AT ribosomal protein L9 hs
MU11KSUBA:AA050526_F_AT ribosomal protein L9 mm
MG-U74BV2:164935_R_AT ribosomal protein L9 mm
MG-U74CV2:167724_R_AT ribosomal protein L9 mm
MOE430A:1416420_A_AT ribosomal protein L9 mm
MOUSE430A_2:1416420_A_AT ribosomal protein L9 mm
MOUSE430_2:1416420_A_AT ribosomal protein L9 mm
RG-U34A:X51706CDS_G_AT ribosomal protein L9 rn
RG-U34A:X51706CDS_AT ribosomal protein L9 rn
RG-U34B:RC_AA924548_AT ribosomal protein L9 rn
RG-U34C:RC_AI235497_S_AT ribosomal protein L9 rn
RAE230A:1371301_AT ribosomal protein L9 rn
RAT230_2:1371301_AT ribosomal protein L9 rn
YEAST_2:1776927_AT Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl9Bp and has similarity to E. coli L6 and rat L9 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
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 AAK84469 Ribosomal protein, large subunit protein 9 [Caenorhabditis elegans] ref|NP_498660.1| Ribosomal Protein, Large subunit family member (rpl-9) [Caenorhabditis elegans] sp|Q95Y90|RL9_CAEEL 60S ribosomal protein L9 1.0E-102
blast CAE64446 Hypothetical protein CBG09153 [Caenorhabditis briggsae] 1.0E-100
Protein Domains
Database ID Description E-Value
Pfam IPR000702 EMBL-EBI Ribosomal protein L6 6.0E-22
Pfam IPR000702 EMBL-EBI Ribosomal protein L6 3.4E-15
Sequence
Target Sequence 
>C. ELEGANS:173087_S_AT
cccatcaacgttacccttcaagatgganacaganctgttgagatccgtaacttcttggga
gagaagatcgttcgtcgtgttccacttccagagggagtcatcgccaccatctccaccgcc
cacaaggacgagatcgtagtcgagggaaatgatgtccaattcgtatctcaagccgctgnc
cgtatccaacaatccaccgccgttaaggagaaggatatccgtaaattcctcgacggaatc
tacgtttcggagaagaccaccat

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
CCCATCAACGTTACCCTTCAAGATG 26 259 50 Antisense
CTGTTGAGATCCGTAACTTCTTGGG 305 239 84 Antisense
TGGGAGAGAAGATCGTTCGTCGTGT 182 545 105 Antisense
CACTTCCAGAGGGAGTCATCGCCAC 645 195 132 Antisense
AGGACGAGATCGTAGTCGAGGGAAA 636 55 174 Antisense
GAGGGAAATGATGTCCAATTCGTAT 703 401 191 Antisense
TGTCCAATTCGTATCTCAAGCCGCT 457 557 202 Antisense
CAACAATCCACCGCCGTTAAGGAGA 73 187 236 Antisense
GAAGGATATCCGTAAATTCCTCGAC 182 335 259 Antisense
TTCCTCGACGGAATCTACGTTTCGG 66 687 275 Antisense
TCTACGTTTCGGAGAAGACCACCAT 102 613 288 Antisense
Sequence Source Affymetrix Proprietary Database