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[187970_s_at] Ribosomal protein L9

Description R13A5.8 /REP_DB=WormBase Gene ID /WP=CE01380 /GEN=rpl-9 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Ribosomal protein L9
Cluster 6grp_highest_10_10 > 13      6grp_high1_10_10 > 30      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 08      6grp_total > 32      4grp_total > 17      6grp_cgc > 71      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16783
1 2 3 4 range
A 21985.1
(-3)
P 		26271.9
(-1.3)
P 		25972
(-1.4)
P 		37125.5
(3)
P 		15140
B 23279.9
(-3)
P 		23723.2
(-2.3)
P 		25553.7
(0.4)
P 		27342.2
(3)
P 		4062
C 20343
(-3)
P 		23159.7
(-1.5)
P 		21071.9
(-2.6)
P 		31919.8
(3)
P 		11577
avr 21869.3
(-3) 		24384.9
(-1.5) 		24199.2
(-1.6) 		32129.2
(3) 		10260

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8712
1 2 3 4 5 6 range
A 23552.9
(3)
P 		20707
(0.3)
P 		22805.5
(2.3)
P 		18985.9
(-1.3)
P 		17130.5
(-3)
P 		18840
(-1.4)
P 		6422
B 19644
(0.7)
P 		18672.1
(-0.1)
P 		22583.1
(3)
P 		20125
(1)
P 		15775.3
(-2.4)
P 		15027.5
(-3)
P 		7556
C 18513.2
(0.3)
P 		19456.7
(1.2)
P 		21439.1
(3)
P 		18433.1
(0.3)
P 		18106
(-0)
P 		14840.8
(-3)
P 		6598
avr 20570
(1.3) 		19611.9
(0.4) 		22275.9
(3) 		19181.3
(-0.1) 		17003.9
(-2.2) 		16236.1
(-3) 		6040
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2623
1 2 3 4 range
A 8004.8
(3)
P 		5702.9
(-2.4)
P 		6789.6
(0.2)
P 		5434.5
(-3)
P 		2570
B 7423.8
(3)
P 		5859.1
(-2.9)
P 		5921.4
(-2.6)
P 		5826.6
(-3)
P 		1597
C 6734.1
(1.1)
P 		6658.5
(0.9)
P 		7344.2
(3)
P 		5382.2
(-3)
P 		1962
avr 7387.6
(3) 		6073.5
(-1.3) 		6685.1
(0.7) 		5547.8
(-3) 		1840

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3658
1 2 3 4 5 6 range
A 4341.8
(-3)
P 		7364.4
(3)
P 		4966.6
(-1.8)
P 		4815.3
(-2.1)
P 		5169.2
(-1.4)
P 		4586.9
(-2.5)
P 		3023
B 6835.1
(3)
P 		6215.2
(0.5)
P 		5483.9
(-2.4)
P 		5330.4
(-3)
P 		6409.3
(1.3)
P 		5603.7
(-1.9)
P 		1505
C 6862
(3)
P 		5936.8
(1.2)
P 		5456.6
(0.3)
P 		3706.9
(-3)
P 		5858.8
(1.1)
P 		4968.1
(-0.6)
P 		3155
avr 6013
(1.4) 		6505.5
(3) 		5302.4
(-0.8) 		4617.5
(-3) 		5812.4
(0.8) 		5052.9
(-1.6) 		1888
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187970_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6688
Sequence Type Exemplar sequence
Representative Public ID R13A5.8 NCBI
Target Description R13A5.8 /REP_DB=WormBase Gene ID /WP=CE01380 /GEN=rpl-9 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Ribosomal protein L9
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_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:7572060-7572731(-) 100.0 100.0
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:187970_S_AT
gtctaacgacactgttgtgttcccagagggagtcaccttcaccgtcaagaaccgcatcgt
ccatgtcaccggaccacgcggaaccatccgcaaggatttccgtcacttgcacatggagat
ggagcgtatcggaaagagcaccctccgcgtccgcaagtggttcggagttcgtaaggagct
tgccgctatccgcactgtctgctcccacatcaagaacatgatcaagggagtcaccgtcgg
attccgctacaagatgcgttccgtatatgccca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTCTAACGACACTGTTGTGTTCCCA 333 469 27 Antisense
GTGTTCCCAGAGGGAGTCACCTTCA 448 483 43 Antisense
GGAACCATCCGCAAGGATTTCCGTC 226 529 106 Antisense
GATTTCCGTCACTTGCACATGGAGA 69 429 121 Antisense
GAGCGTATCGGAAAGAGCACCCTCC 239 385 148 Antisense
TCCGCGTCCGCAAGTGGTTCGGAGT 136 595 170 Antisense
GTTCGTAAGGAGCTTGCCGCTATCC 269 443 193 Antisense
GTCTGCTCCCACATCAAGAACATGA 464 471 223 Antisense
GATCAAGGGAGTCACCGTCGGATTC 444 419 246 Antisense
CCGTCGGATTCCGCTACAAGATGCG 294 263 260 Antisense
ACAAGATGCGTTCCGTATATGCCCA 408 113 275 Antisense
Sequence Source Affymetrix Proprietary Database