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[192013_s_at] ribosomal protein

Description E04A4.8 /REP_DB=WormBase Gene ID /WP=CE21392 /GEN=rpl-20 /TR=O44480 /GB=AAB92041.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=ribosomal protein
Cluster 6grp_highest_10_10 > 13      6grp_high1_10_10 > 20      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 09      6grp_total > 33      4grp_total > 17      6grp_cgc > 71      6grp_cgc_sub > 03      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 18790
1 2 3 4 range
A 29003.5
(-3)
P 		39059.4
(0.3)
P 		36129.7
(-0.7)
P 		47230.2
(3)
P 		18227
B 29727.3
(-3)
P 		30791.2
(-2.3)
P 		32245.3
(-1.3)
P 		38497.2
(3)
P 		8770
C 28440.7
(-3)
P 		30707.8
(-2.1)
P 		28565.5
(-3)
P 		44124.1
(3)
P 		15683
avr 29057.2
(-3) 		33519.5
(-1.1) 		32313.5
(-1.6) 		43283.8
(3) 		14227

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9760
1 2 3 4 5 6 range
A 28586.3
(2.5)
P 		22800.7
(-1.4)
P 		29362.1
(3)
P 		24894.4
(0)
P 		20384.7
(-3)
P 		25240.8
(0.2)
P 		8977
B 25458.1
(3)
P 		25255.2
(2.8)
P 		24915.6
(2.4)
P 		21796.2
(-0.8)
P 		19750.9
(-3)
P 		20300.8
(-2.4)
P 		5707
C 23966.5
(0.9)
P 		26021.8
(2.8)
P 		26252.7
(3)
P 		24099.2
(1.1)
P 		23335.7
(0.4)
P 		19602.2
(-3)
P 		6651
avr 26003.6
(2.1) 		24692.6
(0.7) 		26843.5
(3) 		23596.6
(-0.4) 		21157.1
(-3) 		21714.6
(-2.4) 		5686
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3647
1 2 3 4 range
A 10560.2
(3)
P 		8478.7
(-0.4)
P 		9445
(1.2)
P 		6913.6
(-3)
P 		3647
B 9479.8
(3)
P 		7604.7
(-2.6)
P 		7472
(-3)
P 		8203.8
(-0.8)
P 		2008
C 9414.7
(1.7)
P 		8828.7
(0.3)
P 		9956
(3)
P 		7440
(-3)
P 		2516
avr 9818.2
(3) 		8304
(-1) 		8957.7
(0.8) 		7519.1
(-3) 		2299

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4037
1 2 3 4 5 6 range
A 5269.7
(-3)
P 		8109.1
(3)
P 		6394.4
(-0.6)
P 		6313.8
(-0.8)
P 		6151.2
(-1.1)
P 		6145.3
(-1.1)
P 		2839
B 8858.2
(3)
P 		8406.4
(2.1)
P 		6050.2
(-2.5)
P 		5773.1
(-3)
P 		8024.5
(1.4)
P 		7570.1
(0.5)
P 		3085
C 8883.3
(3)
P 		7940
(1.6)
P 		6681.8
(-0.3)
P 		4846.4
(-3)
P 		7551.1
(1)
P 		6562
(-0.5)
P 		4037
avr 7670.4
(1.8) 		8151.8
(3) 		6375.5
(-1.3) 		5644.4
(-3) 		7242.3
(0.8) 		6759.1
(-0.3) 		2507
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192013_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10734
Sequence Type Exemplar sequence
Representative Public ID E04A4.8 NCBI
Target Description E04A4.8 /REP_DB=WormBase Gene ID /WP=CE21392 /GEN=rpl-20 /TR=O44480 /GB=AAB92041.2 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=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_068229(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068229 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-20) (rpl-20) mRNA, complete cds. 11/11 None
SNAP00000043793 ENSEMBL cdna:SNAP chromosome:CEL140:IV:4749170:4749760:-1 11/11 None
E04A4.8.1 ENSEMBL cdna:known chromosome:CEL140:IV:4749003:4749769:-1 gene:E04A4.8 11/11 None
E04A4.8.2 ENSEMBL cdna:known chromosome:CEL140:IV:4749003:4749773:-1 gene:E04A4.8 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000043817 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:4749175-4749766(-) 100.0 100.0
Public Domain and Genome References
Gene Title ribosomal protein
Gene Symbol rpl-20
Ensembl E04A4.8
Entrez Gene 3565264 Entrez gene
SwissProt O44480 EMBL-EBI
WormBase CE21392 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1597750_AT similar to ribosomal protein L18a cfa
CANINE:1591967_X_AT similar to ribosomal protein L18a cfa
CANINE:1591966_S_AT similar to ribosomal protein L18a cfa
CANINE:1587133_X_AT similar to ribosomal protein L18a cfa
CANINE:1583392_AT similar to ribosomal protein L18a cfa
CANINE_2:CFA.10645.1.S1_AT similar to ribosomal protein L18a cfa
CANINE_2:CFA.10645.1.S1_S_AT similar to ribosomal protein L18a cfa
CANINE_2:CFA.6101.1.A1_AT similar to ribosomal protein L18a cfa
CHICKEN:GGA.4729.1.S1_A_AT ribosomal protein L18a gga
CHICKEN:GGA.4729.2.S1_AT Ribosomal protein L18a gga
HG-U133_PLUS_2:200869_AT ribosomal protein L18a hs
HG-FOCUS:200869_AT ribosomal protein L18a hs
HG-U133A:200869_AT ribosomal protein L18a hs
HG-U133A_2:200869_AT ribosomal protein L18a hs
HU35KSUBA:X80822_F_AT ribosomal protein L18a hs
HU35KSUBC:RC_H42321_F_AT ribosomal protein L18a hs
HU35KSUBC:RC_AA004716_F_AT ribosomal protein L18a hs
HU35KSUBD:RC_AA402920_AT ribosomal protein L18a hs
HU35KSUBD:RC_H13532_F_AT ribosomal protein L18a hs
HUGENEFL:X80822_AT ribosomal protein L18a hs
U133_X3P:G11415025_3P_X_AT ribosomal protein L18a hs
U133_X3P:HS.283952.0.S1_3P_X_AT ribosomal protein L18a hs
HG-U133A_2:216383_AT ribosomal protein L18a hs
HG-U133_PLUS_2:216383_AT ribosomal protein L18a hs
HG-U133A:216383_AT ribosomal protein L18a hs
HG-U95AV2:33614_AT ribosomal protein L18a hs
MOE430B:1428152_A_AT Ribosomal protein L18A mm
MOUSE430_2:1428152_A_AT Ribosomal protein L18A mm
RG-U34A:RC_AA799899_I_AT similar to 60S ribosomal protein L18a rn
RG-U34A:X14181CDS_R_AT similar to 60S ribosomal protein L18a rn
RG-U34A:X14181CDS_S_AT similar to 60S ribosomal protein L18a rn
RAE230A:1398324_AT similar to 60S ribosomal protein L18a rn
RAT230_2:1398324_AT similar to 60S ribosomal protein L18a rn
YEAST_2:1772947_AT Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl20Ap and has similarity to rat L18a ribosomal protein Sc
YEAST_2:1777379_S_AT Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl20Ap and has similarity to rat L18a ribosomal protein 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 AAB92041 Ribosomal protein, large subunit protein 20 [Caenorhabditis elegans] ref|NP_500630.1| Ribosomal Protein, Large subunit family member (rpl-20) [Caenorhabditis elegans] sp|O44480|RL18A_CAEEL 60S ribosomal protein L18a 1.0E-102
blast CAE58579 Hypothetical protein CBG01745 [Caenorhabditis briggsae] 1.0E-101
blast AAH42256 RPL18A protein [Xenopus laevis] 4.0E-61
Protein Domains
Database ID Description E-Value
Pfam IPR002670 EMBL-EBI Ribosomal L18ae protein 5.8E-107
Sequence
Target Sequence 
>C. ELEGANS:192013_S_AT
tcgtcgtcggacgcaaaatcccaacagagaaggagccagtgactccaatctggaagatgc
aaatcttcgccaccaaccacgtcatcgccaagtctcgtttctggtacttcgtctctatgc
tccgtcgtgtgaagaaggccaacggagagatcctttcgatcaagcaggtgttcgagaaga
acccaggaaccgtcaagaactacggagtctggctcaagtacgattcccgtaccggacacc
acaacatgtaccgtgagtaccgtgacaccaccgttgccggagccgtcacccagtgctacc
gtgacatgggagctcgtcatcgtgcccaagctgaccgcatccacatcctcaaggtccaaa
ccgtcaaggccgaagacaccaagcgtgccggaatcaagatgttccacgacgccaagatca
gattcccactcccacatcgcgtcaccaagagaaagaacctcagcgtcttcaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGTCGTCGGACGCAAAATCCCAAC 367 561 53 Antisense
CAAGTCTCGTTTCTGGTACTTCGTC 113 181 141 Antisense
TCTCTATGCTCCGTCGTGTGAAGAA 613 611 164 Antisense
GGAGTCTGGCTCAAGTACGATTCCC 548 515 256 Antisense
ACCGGACACCACAACATGTACCGTG 351 89 283 Antisense
GTCACCCAGTGCTACCGTGACATGG 516 465 337 Antisense
TGACATGGGAGCTCGTCATCGTGCC 200 569 354 Antisense
TCAAGGTCCAAACCGTCAAGGCCGA 87 633 401 Antisense
GTTCCACGACGCCAAGATCAGATTC 320 441 453 Antisense
CCCACATCGCGTCACCAAGAGAAAG 133 259 483 Antisense
GAGAAAGAACCTCAGCGTCTTCACA 142 393 501 Antisense
Sequence Source Affymetrix Proprietary Database