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[190847_s_at] 60S ribosomal protein

Description C09H10.2 /REP_DB=WormBase Gene ID /WP=CE02131 /TR=SW:P48166 /GB=CAA90434.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=60S ribosomal protein
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 30      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 09      6grp_total > 41      4grp_total > 17      6grp_cgc > 71      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15364
1 2 3 4 range
A 23461.5
(-3)
P 		30756
(0.3)
P 		29439.7
(-0.3)
P 		36876.6
(3)
P 		13415
B 24197
(-3)
P 		25960.8
(-1.7)
P 		27264.6
(-0.8)
P 		32585
(3)
P 		8388
C 21512.3
(-3)
P 		26322.7
(-0.9)
P 		24277.3
(-1.8)
P 		35149
(3)
P 		13637
avr 23056.9
(-3) 		27679.8
(-0.7) 		26993.9
(-1) 		34870.2
(3) 		11813

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9326
1 2 3 4 5 6 range
A 24368.7
(1.1)
P 		20630
(-1.6)
P 		26922.1
(3)
P 		23571.5
(0.5)
P 		18724.1
(-3)
P 		19326.1
(-2.6)
P 		8198
B 21867.6
(0.9)
P 		22750
(1.7)
P 		24159.5
(3)
P 		19592.6
(-1.2)
P 		17595.9
(-3)
P 		17862
(-2.8)
P 		6564
C 20325
(-1.6)
P 		22583.2
(1.7)
P 		22837.4
(2)
P 		23494.9
(3)
P 		19829.2
(-2.3)
P 		19355.7
(-3)
P 		4139
avr 22187.1
(0.5) 		21987.7
(0.3) 		24639.7
(3) 		22219.7
(0.5) 		18716.4
(-3) 		18847.9
(-2.9) 		5923
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3144
1 2 3 4 range
A 8542.3
(3)
P 		6676.3
(-0.6)
P 		7696.1
(1.4)
P 		5398
(-3)
P 		3144
B 7716.2
(3)
P 		6411.7
(-2.6)
P 		6317.8
(-3)
P 		6943.9
(-0.3)
P 		1398
C 7121.2
(-0.2)
P 		7567.9
(0.9)
P 		8461.4
(3)
P 		5926.7
(-3)
P 		2535
avr 7793.2
(3) 		6885.3
(-0.2) 		7491.8
(1.9) 		6089.5
(-3) 		1704

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3117
1 2 3 4 5 6 range
A 4492.2
(-3)
P 		7337
(3)
P 		5863.1
(-0.1)
P 		5978.3
(0.1)
P 		5650.1
(-0.6)
P 		4705.3
(-2.6)
P 		2845
B 7608.9
(3)
P 		7572.5
(2.9)
P 		5866.6
(-1.3)
P 		5189.4
(-3)
P 		7149
(1.9)
P 		6660.7
(0.6)
P 		2420
C 7533.6
(3)
P 		6890.8
(1.6)
P 		5812.5
(-0.7)
P 		4724.8
(-3)
P 		6416.4
(0.6)
P 		6479.5
(0.7)
P 		2809
avr 6544.9
(0.8) 		7266.8
(3) 		5847.4
(-1.3) 		5297.5
(-3) 		6405.2
(0.4) 		5948.5
(-1) 		1969
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190847_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3343
Sequence Type Exemplar sequence
Representative Public ID C09H10.2 NCBI
Target Description C09H10.2 /REP_DB=WormBase Gene ID /WP=CE02131 /TR=SW:P48166 /GB=CAA90434.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=60S ribosomal protein
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_063974(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063974 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-41) (rpl-41) mRNA, complete cds. 11/11 None
SNAP00000010329 ENSEMBL cdna:SNAP chromosome:CEL140:II:11096530:11098937:-1 11/11 None
GENEFINDER00000010337 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:11096530:11097112:-1 11/11 None
C09H10.2.3 ENSEMBL cdna:known chromosome:CEL140:II:11096107:11097117:-1 gene:C09H10.2 11/11 None
C09H10.2.1 ENSEMBL cdna:known chromosome:CEL140:II:11096454:11097117:-1 gene:C09H10.2 11/11 None
C09H10.2.2 ENSEMBL cdna:known chromosome:CEL140:II:11096468:11097119:-1 gene:C09H10.2 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
chrII:11096526-11097109(-) 100.0 100.0
Public Domain and Genome References
Gene Title 60S ribosomal protein
Gene Symbol rpl-41
Ensembl C09H10.2
Entrez Gene 174695 Entrez gene
SwissProt P48166 EMBL-EBI
WormBase CE02131 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:258296_AT 60S ribosomal protein L36a/L44 (RPL36aA) at
CANINE:1587547_AT similar to large subunit ribosomal protein L36a cfa
CANINE_2:CFA.3214.1.S1_A_AT similar to large subunit ribosomal protein L36a cfa
CANINE_2:CFA.3214.1.S1_S_AT similar to large subunit ribosomal protein L36a cfa
CANINE_2:CFA.3214.2.S1_AT similar to large subunit ribosomal protein L36a cfa
DROSOPHILA_2:1632962_AT Ribosomal protein L36A dm
DROSGENOME1:146006_AT Ribosomal protein L36A dm
CHICKEN:GGA.4542.1.S1_A_AT ribosomal protein L36a-like gga
HG-U133_PLUS_2:207585_S_AT ribosomal protein L36a-like hs
HG-U133A:207585_S_AT ribosomal protein L36a-like hs
HG-FOCUS:207585_S_AT ribosomal protein L36a-like hs
HG-U133A_2:207585_S_AT ribosomal protein L36a-like hs
HUGENEFL:M15661_AT ribosomal protein L36a-like hs
U133_X3P:G4506650_3P_A_AT ribosomal protein L36a-like hs
HG-U95AV2:39856_AT ribosomal protein L36a-like hs
MU11KSUBB:W30137_F_AT ribosomal protein L36a-like mm
MOE430A:1448697_S_AT ribosomal protein L36a-like mm
MOUSE430A_2:1448697_S_AT ribosomal protein L36a-like mm
MOUSE430_2:1448697_S_AT ribosomal protein L36a-like mm
RG-U34A:RC_AA859783_AT large subunit ribosomal protein L36a rn
RAE230A:1398770_AT large subunit ribosomal protein L36a rn
RAT230_2:1398770_AT large subunit ribosomal protein L36a rn
YEAST_2:1775594_S_AT Protein component of the large (60S) ribosomal subunit, identical to Rpl42Bp and has similarity to rat L44 ribosomal protein Sc
YEAST_2:1775594_S_AT Protein component of the large (60S) ribosomal subunit, identical to Rpl42Ap and has similarity to rat L44; required for propagation of the killer toxin-encoding M1 double-stranded RNA satellite of the L-A double-stranded RNA virus 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 CAA90434 Hypothetical protein C09H10.2 [Caenorhabditis elegans] ref|NP_496375.1| Ribosomal Protein, Large subunit family member (rpl-41) [Caenorhabditis elegans] gb|AAG50234.1| 60S ribosomal protein L44 L41 [Caenorhabditis elegans] sp|P48166|RL44_CAEEL 60S ribosomal protein L44 (L41) emb|CAE59573.1| Hypothetical protein CBG02971 [Caenorhabditis briggsae] 1.0E-57
blast CAA90434 Hypothetical protein C09H10.2 [Caenorhabditis elegans] ref|NP_496375.1| Ribosomal Protein, Large subunit family member (rpl-41) [Caenorhabditis elegans] gb|AAG50234.1| 60S ribosomal protein L44 L41 [Caenorhabditis elegans] sp|P48166|RL44_CAEEL 60S ribosomal protein L44 (L41) emb|CAE59573.1| Hypothetical protein CBG02971 [Caenorhabditis briggsae] 2.0E-57
blast CAA90434 Hypothetical protein C09H10.2 [Caenorhabditis elegans] ref|NP_496375.1| Ribosomal Protein, Large subunit family member (rpl-41) [Caenorhabditis elegans] gb|AAG50234.1| 60S ribosomal protein L44 L41 [Caenorhabditis elegans] sp|P48166|RL44_CAEEL 60S ribosomal protein L44 (L41) emb|CAE59573.1| Hypothetical protein CBG02971 [Caenorhabditis briggsae] 8.0E-55
blast P90702 60S ribosomal protein L44 gb|AAC47627.1| ribosomal protein L44 [Brugia malayi] 4.0E-53
Protein Domains
Database ID Description E-Value
Pfam IPR000552 EMBL-EBI Ribosomal protein L44E 3.7E-48
Pfam IPR000552 EMBL-EBI Ribosomal protein L44E 1.5E-40
Pfam IPR000552 EMBL-EBI Ribosomal protein L44E 3.7E-48
Sequence
Target Sequence 
>C. ELEGANS:190847_S_AT
ggtcaacgtgccaaaagccagaagaaccttctgtgacggcaagtgccgcaagcacaccaa
ccacaaggttacccaatacaagaagggaaaggaatccaagttcgctcaaggacgtcgtcg
ttacgacagaaaacaatctggattcggaggacaaaccaagccaatcttcagaaagaaggc
caagaccaccaagaaaatcgtcttgagaatggagtgcaccgagtgcaagcacaagaagca
actcccaatcaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTCAACGTGCCAAAAGCCAGAAGA 54 501 15 Antisense
AGAAGAACCTTCTGTGACGGCAAGT 433 71 34 Antisense
TGACGGCAAGTGCCGCAAGCACACC 684 569 48 Antisense
AGCACACCAACCACAAGGTTACCCA 171 69 65 Antisense
GGAAAGGAATCCAAGTTCGCTCAAG 581 527 100 Antisense
CAAGTTCGCTCAAGGACGTCGTCGT 433 183 111 Antisense
CGGAGGACAAACCAAGCCAATCTTC 240 241 159 Antisense
GAAGGCCAAGACCACCAAGAAAATC 391 333 189 Antisense
ATCGTCTTGAGAATGGAGTGCACCG 571 33 211 Antisense
GGAGTGCACCGAGTGCAAGCACAAG 294 517 225 Antisense
GCACAAGAAGCAACTCCCAATCAAG 360 317 243 Antisense
Sequence Source Affymetrix Proprietary Database