[Home] | [Total List]

[192805_at] ribsomal protein L28 like

Description R11D1.8 /REP_DB=WormBase Gene ID /WP=CE06313 /GEN=rpl-28 /TR=Q21930 /GB=CAA99898.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=ribsomal protein L28 like
Cluster 6grp_highest_10_10 > 13      6grp_high1_10_10 > 31      4grp_highest_8_8 > 13      4grp_high_8_8 > 23      6grp_highest_nonorm > 18      6grp_total > 33      4grp_total > 16      6grp_cgc > 80      6grp_high1_sub > 03      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13508
1 2 3 4 range
A 21120.9
(-3)
P 		23991.7
(-1.5)
P 		26001.5
(-0.5)
P 		32610
(3)
P 		11489
B 21312
(-3)
P 		24253.5
(-1.1)
P 		30430.9
(3)
P 		29601.3
(2.5)
P 		9119
C 19772.8
(-3)
P 		22947.2
(-1.6)
P 		22898.4
(-1.6)
P 		33280.5
(3)
P 		13508
avr 20735.2
(-3) 		23730.8
(-1.4) 		26443.6
(0.1) 		31830.6
(3) 		11095

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5954
1 2 3 4 5 6 range
A 16101.8
(2.6)
P 		16315
(3)
P 		16148.5
(2.7)
P 		14539.2
(-0.7)
P 		13405.4
(-3)
P 		15214.8
(0.7)
P 		2910
B 15738.6
(1.9)
P 		13351.3
(-0.5)
P 		16787.3
(3)
P 		12156
(-1.7)
P 		12375.9
(-1.4)
P 		10833.4
(-3)
P 		5954
C 15671.9
(2.3)
P 		12445.6
(-2.2)
P 		16205.2
(3)
P 		13202.8
(-1.1)
P 		15122.2
(1.5)
P 		11846.6
(-3)
P 		4359
avr 15837.4
(2.1) 		14037.3
(-0.8) 		16380.3
(3) 		13299.3
(-1.9) 		13634.5
(-1.4) 		12631.6
(-3) 		3749
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3207
1 2 3 4 range
A 7690.1
(3)
P 		5207.9
(-2.1)
P 		6797.3
(1.2)
P 		4773.5
(-3)
P 		2917
B 6796.2
(1.6)
P 		5990.1
(-3)
P 		7051.5
(3)
P 		6308.1
(-1.2)
P 		1061
C 6545.4
(-0.6)
P 		6597.5
(-0.5)
P 		7980.8
(3)
P 		5611.6
(-3)
P 		2369
avr 7010.6
(2.1) 		5931.8
(-1.7) 		7276.5
(3) 		5564.4
(-3) 		1712

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3154
1 2 3 4 5 6 range
A 2968.2
(-3)
P 		5802.4
(3)
P 		3516.8
(-1.8)
P 		3687.5
(-1.5)
P 		4045.2
(-0.7)
P 		3704.3
(-1.4)
P 		2834
B 5476.3
(3)
P 		4444.1
(0.3)
P 		4076.5
(-0.7)
P 		3219.7
(-3)
P 		5028.2
(1.8)
P 		4039.7
(-0.8)
P 		2257
C 5808.9
(3)
P 		3797.5
(-0.8)
P 		4124.5
(-0.2)
P 		2655.1
(-3)
P 		4893.3
(1.3)
P 		3965.8
(-0.5)
P 		3154
avr 4751.1
(3) 		4681.3
(2.7) 		3905.9
(-0.2) 		3187.4
(-3) 		4655.6
(2.6) 		3903.3
(-0.3) 		1564
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192805_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13866
Sequence Type Exemplar sequence
Representative Public ID R11D1.8 NCBI
Target Description R11D1.8 /REP_DB=WormBase Gene ID /WP=CE06313 /GEN=rpl-28 /TR=Q21930 /GB=CAA99898.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=ribsomal protein L28 like
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_073779(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073779 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-28) (rpl-28) mRNA, complete cds. 11/11 None
SNAP00000040856 ENSEMBL cdna:SNAP chromosome:CEL140:V:12730271:12730697:-1 11/11 None
GENEFINDER00000040872 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12730271:12730697:-1 11/11 None
R11D1.8.1 ENSEMBL cdna:known chromosome:CEL140:V:12730191:12730704:-1 gene:R11D1.8 11/11 None
R11D1.8.4 ENSEMBL cdna:known chromosome:CEL140:V:12730191:12730858:-1 gene:R11D1.8 11/11 None
R11D1.8.3 ENSEMBL cdna:known chromosome:CEL140:V:12730191:12730702:-1 gene:R11D1.8 11/11 None
R11D1.8.6 ENSEMBL cdna:known chromosome:CEL140:V:12730191:12730702:-1 gene:R11D1.8 11/11 None
R11D1.8.5 ENSEMBL cdna:known chromosome:CEL140:V:12730191:12730702:-1 gene:R11D1.8 11/11 None
R11D1.8.2 ENSEMBL cdna:known chromosome:CEL140:V:12730191:12730702:-1 gene:R11D1.8 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
chrV:12730270-12730697(-) 100.0 100.0
Public Domain and Genome References
Gene Title ribsomal protein L28 like
Gene Symbol rpl-28
Ensembl R11D1.8
Entrez Gene 179739 Entrez gene
SwissProt Q21930 EMBL-EBI
WormBase CE06313 Wormbase
Functional Annotations
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 CAA99898 Hypothetical protein R11D1.8 [Caenorhabditis elegans] ref|NP_506180.1| Ribosomal Protein, Large subunit family member (rpl-28) [Caenorhabditis elegans] sp|Q21930|RL28_CAEEL 60S ribosomal protein L28 2.0E-63
blast CAE63977 Hypothetical protein CBG08569 [Caenorhabditis briggsae] 2.0E-57
Protein Domains
Database ID Description E-Value
Pfam IPR002672 EMBL-EBI Ribosomal L28e protein 1.2E-68
Sequence
Target Sequence 
>C. ELEGANS:192805_AT
tgtggcaagtcatccgcaacaacagcgctttcctcagaacccagcgcggaatcggaaagc
gattctccactgagaagttcaacctcaagaaggtgaacagcccaaaatacagtggactcg
ctaacaagcacgccatcgacgtcagcgccgccgccaagggagtcgttgtatctaccaaga
acgagaagggaagaccagccaaggccgtcaccacctccaccttgagcaagaccccagttg
cttcagtccgtcgcttggccaagaacgccggattc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTGGCAAGTCATCCGCAACAACAG 65 555 29 Antisense
CGCAACAACAGCGCTTTCCTCAGAA 428 253 43 Antisense
TCAGAACCCAGCGCGGAATCGGAAA 580 623 62 Antisense
ATCGGAAAGCGATTCTCCACTGAGA 424 35 79 Antisense
CTCCACTGAGAAGTTCAACCTCAAG 187 235 93 Antisense
GAAGGTGAACAGCCCAAAATACAGT 68 333 117 Antisense
CAGTGGACTCGCTAACAAGCACGCC 116 209 138 Antisense
GCCGCCAAGGGAGTCGTTGTATCTA 656 283 178 Antisense
GGGAGTCGTTGTATCTACCAAGAAC 494 495 186 Antisense
AGAAGGGAAGACCAGCCAAGGCCGT 300 75 212 Antisense
TCGCTTGGCCAAGAACGCCGGATTC 212 591 279 Antisense
Sequence Source Affymetrix Proprietary Database