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[192813_at] Ribosomal protein L21

Description C14B9.7 /REP_DB=WormBase Gene ID /WP=CE00078 /GEN=rpl-21 /TR=SW:P34334 /GB=AAA27951.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Ribosomal protein L21
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 31      4grp_highest_8_8 > 13      4grp_high_8_8 > 23      6grp_highest_nonorm > 07      6grp_total > 42      4grp_total > 24      6grp_cgc > 81      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 7021
1 2 3 4 range
A 16425.2
(-3)
P 		18830.6
(-0.3)
P 		19286.4
(0.3)
P 		21679.7
(3)
P 		5255
B 14658.6
(-3)
P 		16307.8
(-1.2)
P 		19471.6
(2.3)
P 		20068.9
(3)
P 		5410
C 15309.3
(-3)
P 		16504.4
(-1.8)
P 		16269.9
(-2.1)
P 		21448.7
(3)
P 		6139
avr 15464.4
(-3) 		17214.3
(-1.1) 		18342.6
(0.1) 		21065.8
(3) 		5601

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5472
1 2 3 4 5 6 range
A 11607.7
(-1)
P 		13076
(0.6)
P 		15225.9
(3)
P 		13315.2
(0.9)
P 		9754.1
(-3)
P 		11722.9
(-0.8)
P 		5472
B 13218.1
(2.6)
P 		12124.7
(0.8)
P 		13450.7
(3)
P 		11327.1
(-0.6)
P 		11466
(-0.4)
P 		9904.5
(-3)
P 		3546
C 13280.4
(2.8)
P 		11910
(0.2)
P 		13266.5
(2.7)
P 		10957.9
(-1.6)
P 		13411
(3)
P 		10236.6
(-3)
P 		3174
avr 12702.1
(0.7) 		12370.2
(0.1) 		13981
(3) 		11866.7
(-0.8) 		11543.7
(-1.4) 		10621.3
(-3) 		3360
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2807
1 2 3 4 range
A 5980.4
(3)
P 		4087.6
(-1)
P 		5041.8
(1)
P 		3173.5
(-3)
P 		2807
B 4674.5
(3)
P 		4027.6
(-3)
P 		4512
(1.5)
P 		4276.7
(-0.7)
P 		647
C 5067.8
(1.2)
P 		4745.1
(0.3)
P 		5670.6
(3)
P 		3616.6
(-3)
P 		2054
avr 5240.9
(3) 		4286.8
(-0.7) 		5074.8
(2.4) 		3688.9
(-3) 		1552

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2783
1 2 3 4 5 6 range
A 2139.8
(-3)
P 		4650.5
(3)
P 		3315.9
(-0.2)
P 		3377.1
(-0)
P 		2943.4
(-1.1)
P 		2854.2
(-1.3)
P 		2511
B 4599.3
(2.8)
P 		4035.8
(0.7)
P 		3266.2
(-2)
P 		3000.1
(-3)
P 		4658.5
(3)
P 		3693.3
(-0.5)
P 		1658
C 4922.5
(3)
P 		3634.1
(0.2)
P 		3376.5
(-0.4)
P 		2203.6
(-3)
P 		4339.6
(1.7)
P 		3426.8
(-0.3)
P 		2719
avr 3887.2
(1.9) 		4106.8
(3) 		3319.5
(-0.8) 		2860.3
(-3) 		3980.5
(2.4) 		3324.8
(-0.8) 		1247
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192813_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7854
Sequence Type Exemplar sequence
Representative Public ID C14B9.7 NCBI
Target Description C14B9.7 /REP_DB=WormBase Gene ID /WP=CE00078 /GEN=rpl-21 /TR=SW:P34334 /GB=AAA27951.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation /DEF=Ribosomal protein L21
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_066373(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066373 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-21) (rpl-21) mRNA, complete cds. 11/11 A 
SNAP00000018770 ENSEMBL cdna:SNAP chromosome:CEL140:III:8129512:8130140:-1 11/11 None
GENEFINDER00000018777 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:8129512:8130140:-1 11/11 None
C14B9.7.1 ENSEMBL cdna:known chromosome:CEL140:III:8129442:8130148:-1 gene:C14B9.7 11/11 A 
C14B9.7.2 ENSEMBL cdna:known chromosome:CEL140:III:8129469:8130496:-1 gene:C14B9.7 11/11 A 
C14B9.7.3 ENSEMBL cdna:known chromosome:CEL140:III:8129471:8130154:-1 gene:C14B9.7 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:8129507-8130136(-) 100.0 100.0
Public Domain and Genome References
Gene Title Ribosomal protein L21
Gene Symbol rpl-21
Ensembl C14B9.7
Entrez Gene 176146 Entrez gene
SwissProt P34334 EMBL-EBI
WormBase CE00078 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:264679_S_AT 60S ribosomal protein L21 (RPL21A) at
ATGENOME1:16531_S_AT 60S ribosomal protein L21 (RPL21A) at
CANINE:1583136_AT similar to ribosomal protein L21 cfa
CANINE:1583135_S_AT similar to ribosomal protein L21 cfa
CANINE_2:CFAAFFX.17922.1.S1_AT similar to ribosomal protein L21 cfa
CANINE_2:CFAAFFX.18392.1.S1_X_AT similar to ribosomal protein L21 cfa
CANINE_2:CFAAFFX.21705.1.S1_AT similar to ribosomal protein L21 cfa
CANINE_2:CFAAFFX.21705.1.S1_X_AT similar to ribosomal protein L21 cfa
CANINE_2:CFAAFFX.379.1.S1_X_AT similar to ribosomal protein L21 cfa
CANINE_2:CFAAFFX.544.1.S1_X_AT similar to ribosomal protein L21 cfa
CANINE_2:CFAAFFX.802.1.S1_AT similar to ribosomal protein L21 cfa
MOUSE430_2:1459002_AT similar to ribosomal protein L21 mm
MOE430B:1459002_AT similar to ribosomal protein L21 mm
MU11KSUBA:U93863_S_AT similar to ribosomal protein L21 mm
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 AAA27951 Ribosomal protein, large subunit protein 21 [Caenorhabditis elegans] ref|NP_498774.1| Ribosomal Protein, Large subunit family member (rpl-21) [Caenorhabditis elegans] sp|P34334|RL21_CAEEL 60S ribosomal protein L21 6.0E-89
blast CAE70207 Hypothetical protein CBG16683 [Caenorhabditis briggsae] 7.0E-87
Protein Domains
Database ID Description E-Value
Pfam IPR001147 EMBL-EBI Ribosomal protein L21e 3.4E-69
Sequence
Target Sequence 
>C. ELEGANS:192813_AT
gactaactccaagggtctcagacgcggaacgcgttacatgttcgctcgcgacttccgcaa
gcacggagttgagcacctctccacctactacacccagtacaagcgcggagatcttgtcga
tatcaagaccaatggagctttccaaaagggtatgccattcaaggcttaccacggaagaac
cg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACTAACTCCAAGGGTCTCAGACGC 8 373 15 Antisense
AAGGGTCTCAGACGCGGAACGCGTT 219 157 25 Antisense
GGAACGCGTTACATGTTCGCTCGCG 433 525 40 Antisense
TCGCGACTTCCGCAAGCACGGAGTT 84 599 60 Antisense
GCAAGCACGGAGTTGAGCACCTCTC 145 321 71 Antisense
TACTACACCCAGTACAAGCGCGGAG 573 643 100 Antisense
AAGCGCGGAGATCTTGTCGATATCA 323 149 115 Antisense
GATATCAAGACCAATGGAGCTTTCC 416 425 133 Antisense
GGAGCTTTCCAAAAGGGTATGCCAT 48 517 148 Antisense
GGGTATGCCATTCAAGGCTTACCAC 627 495 162 Antisense
TTCAAGGCTTACCACGGAAGAACCG 694 679 172 Antisense
Sequence Source Affymetrix Proprietary Database