[Home] | [Total List]

[173330_s_at] ribosomal protein

Description AV201115 /REP_DB=TREMBL Accession /GB=AV201115 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk369e12 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 23      6grp_high1_10_10 > 21      4grp_highest_8_8 > 13      4grp_high_8_8 > 23      6grp_highest_nonorm > 08      6grp_total > 32      4grp_total > 16      6grp_highest_sub > 01_02_03      6grp_cgc > 71      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15369
1 2 3 4 range
A 22015
(-3)
P 		25578.5
(-1.6)
P 		29250
(-0.1)
P 		36812.9
(3)
P 		14798
B 23935.7
(-3)
P 		25176.5
(-1.5)
P 		28789.8
(3)
P 		28354.6
(2.5)
P 		4854
C 21443.7
(-3)
P 		23562.4
(-1.9)
P 		23201.9
(-2.1)
P 		32720.3
(3)
P 		11277
avr 22464.8
(-3) 		24772.5
(-1.6) 		27080.6
(-0.3) 		32629.3
(3) 		10165

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12491
1 2 3 4 5 6 range
A 24288.2
(3)
P 		19848.7
(0.4)
P 		22238.7
(1.8)
P 		19180.2
(0.1)
P 		13864.7
(-3)
P 		14422.3
(-2.7)
P 		10424
B 18350.5
(0.7)
P 		20760.1
(2.2)
P 		22118
(3)
P 		15952.9
(-0.7)
P 		14068.8
(-1.8)
P 		12091.6
(-3)
P 		10026
C 17924.2
(1)
P 		20969.5
(3)
P 		20495.1
(2.7)
P 		16298.2
(-0.1)
P 		15092.2
(-0.8)
P 		11796.9
(-3)
P 		9173
avr 20187.6
(2) 		20526.1
(2.3) 		21617.3
(3) 		17143.8
(-0) 		14341.9
(-1.9) 		12770.3
(-3) 		8847
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2698
1 2 3 4 range
A 8015.7
(3)
P 		5552.4
(-2.6)
P 		7646.5
(2.2)
P 		5388.7
(-3)
P 		2627
B 7632.9
(3)
P 		6218
(-2.3)
P 		6671.3
(-0.6)
P 		6042.4
(-3)
P 		1591
C 7098.5
(0.7)
P 		6774.3
(-0.1)
P 		8086.6
(3)
P 		5517.1
(-3)
P 		2570
avr 7582.4
(3) 		6181.6
(-1.3) 		7468.1
(2.6) 		5649.4
(-3) 		1933

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3782
1 2 3 4 5 6 range
A 4477.3
(-1.4)
P 		7059.2
(3)
P 		4843.1
(-0.7)
P 		4864.6
(-0.7)
P 		4183.8
(-1.9)
P 		3511.4
(-3)
P 		3548
B 6385.1
(1.8)
P 		6910.2
(3)
P 		5370.9
(-0.4)
P 		4225.4
(-3)
P 		5716
(0.3)
P 		4508.9
(-2.4)
P 		2685
C 6643.7
(3)
P 		6398.4
(2.6)
P 		5216.4
(0.5)
P 		3277.6
(-3)
P 		4883.6
(-0.1)
P 		3949.1
(-1.8)
P 		3366
avr 5835.4
(1) 		6789.3
(3) 		5143.5
(-0.5) 		4122.5
(-2.7) 		4927.8
(-1) 		3989.8
(-3) 		2800
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173330_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27727
Sequence Type Exemplar sequence
Representative Public ID AV201115 NCBI
Target Description AV201115 /REP_DB=TREMBL Accession /GB=AV201115 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk369e12 : 5prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
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_076012(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076012 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-11.2) (rpl-11.2) mRNA, complete cds. 11/11 A 
F07D10.1.5 ENSEMBL cdna:known chromosome:CEL140:X:2241742:2242613:-1 gene:F07D10.1 11/11 None
F07D10.1.4 ENSEMBL cdna:known chromosome:CEL140:X:2241749:2242739:-1 gene:F07D10.1 11/11 None
F07D10.1.3 ENSEMBL cdna:known chromosome:CEL140:X:2241749:2242613:-1 gene:F07D10.1 11/11 None
F07D10.1.1 ENSEMBL cdna:known chromosome:CEL140:X:2241749:2242740:-1 gene:F07D10.1 11/11 A 
F07D10.1.2 ENSEMBL cdna:known chromosome:CEL140:X:2241800:2242611:-1 gene:F07D10.1 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000004857 4/11 Cross Hyb Matching Probes None
GENEFINDER00000004867 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:2241820-2242273(-) 91.47 91.47
Public Domain and Genome References
Gene Title ribosomal protein
Gene Symbol rpl-11.2
Ensembl F07D10.1
Entrez Gene 180535 Entrez gene
SwissProt Q19162 EMBL-EBI
WormBase CE07033 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:13073_S_AT 60S ribosomal protein L11 (RPL11C) at
ATH1-121501:254617_S_AT 60S ribosomal protein L11 (RPL11D) at
MOE430A:1448773_AT ribosomal protein L11 mm
MOUSE430A_2:1448773_AT ribosomal protein L11 mm
MOUSE430_2:1448773_AT ribosomal protein L11 mm
MOE430A:1417615_A_AT ribosomal protein L11 mm
MOUSE430A_2:1417615_A_AT ribosomal protein L11 mm
MOUSE430_2:1417615_A_AT ribosomal protein L11 mm
RG-U34A:X62146CDS_G_AT ribosomal protein L11 (predicted) rn
RG-U34A:X62146CDS_AT ribosomal protein L11 (predicted) rn
RG-U34C:RC_AI233163_I_AT ribosomal protein L11 (predicted) rn
RAE230A:1371330_AT ribosomal protein L11 (predicted) rn
RAT230_2:1371330_AT ribosomal protein L11 (predicted) rn
YEAST_2:1770577_AT Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl11Ap; involved in ribosomal assembly; depletion causes degradation of proteins and RNA of the 60S subunit; has similarity to E. coli L5 and rat L11 Sc
YEAST_2:1778560_S_AT Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl11Ap; involved in ribosomal assembly; depletion causes degradation of proteins and RNA of the 60S subunit; has similarity to E. coli L5 and rat L11 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 AAA83599 Ribosomal protein, large subunit protein 11.2 [Caenorhabditis elegans] ref|NP_508413.1| Ribosomal Protein, Large subunit family member (rpl-11.2) [Caenorhabditis elegans] emb|CAE68333.1| Hypothetical protein CBG14053 [Caenorhabditis briggsae] 1.0E-99
blast AAB18306 Ribosomal protein, large subunit protein 11.1 [Caenorhabditis elegans] ref|NP_504008.1| Ribosomal Protein, Large subunit family member (rpl-11.1) [Caenorhabditis elegans] sp|Q94300|RL11_CAEEL 60S ribosomal protein L11 2.0E-93
Protein Domains
Database ID Description E-Value
Pfam IPR002132 EMBL-EBI Ribosomal protein L5 6.1E-27
Pfam IPR002132 EMBL-EBI Ribosomal protein L5 2.5E-55
Sequence
Target Sequence 
>C. ELEGANS:173330_S_AT
acgagctctacaaggagaacttctccgacaccggaaacttcggattcggagtccaggagc
acatcgacttgggaatcaagtacgatccatcgatcggaatctacggaatggacttctacg
ttgtccttgaccgtgctggacgccgtatcgccaagagaagacgcgccccaggacgtgtcg
gaccatcccacagagtcgagcgtgaggagtccatcaagtggttccaacagaagtatgtcg
gaatcatcctcccaccaaagccaaaggtcaagcgcacattcca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACGAGCTCTACAAGGAGAACTTCTC 504 93 35 Antisense
GAGAACTTCTCCGACACCGGAAACT 412 391 49 Antisense
GGAAACTTCGGATTCGGAGTCCAGG 398 527 67 Antisense
GTCCAGGAGCACATCGACTTGGGAA 202 477 85 Antisense
GGGAATCAAGTACGATCCATCGATC 53 493 105 Antisense
TGGACTTCTACGTTGTCCTTGACCG 455 547 143 Antisense
GTATCGCCAAGAGAAGACGCGCCCC 32 455 179 Antisense
ACCATCCCACAGAGTCGAGCGTGAG 14 87 216 Antisense
GAGTCGAGCGTGAGGAGTCCATCAA 601 399 227 Antisense
GGAGTCCATCAAGTGGTTCCAACAG 388 517 240 Antisense
AGCCAAAGGTCAAGCGCACATTCCA 419 83 293 Antisense
Sequence Source Affymetrix Proprietary Database