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[173331_s_at] Ribosomal protein YL39

Description AV193835 /REP_DB=TREMBL Accession /GB=AV193835 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk622b10 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 15      6grp_high1_10_10 > 40      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 09      6grp_total > 41      4grp_total > 17      6grp_highest_sub > 03      6grp_cgc > 82      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 23087
1 2 3 4 range
A 29563.1
(-3)
P 		37803.3
(-0.6)
P 		36024.6
(-1.2)
P 		50559.4
(3)
P 		20996
B 33367.5
(-2.4)
P 		32885.9
(-3)
P 		36245.4
(1.3)
P 		37611.1
(3)
P 		4725
C 27472.5
(-3)
P 		31348.6
(-1.7)
P 		28501.6
(-2.6)
P 		45111.8
(3)
P 		17639
avr 30134.4
(-3) 		34012.6
(-1.4) 		33590.5
(-1.5) 		44427.4
(3) 		14293

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11560
1 2 3 4 5 6 range
A 32654
(2.9)
P 		25667.2
(-1.5)
P 		32772.6
(3)
P 		28204.9
(0.1)
P 		23257.2
(-3)
P 		24767.8
(-2)
P 		9515
B 25407.7
(-0.4)
P 		26025.5
(-0)
P 		30853.8
(3)
P 		25866.4
(-0.1)
P 		21212.5
(-3)
P 		22448.6
(-2.2)
P 		9641
C 22830.5
(-3)
P 		27534.3
(0.5)
P 		28004
(0.9)
P 		30785.2
(3)
P 		24086.9
(-2.1)
P 		23456.2
(-2.5)
P 		7955
avr 26964.1
(0.2) 		26409
(-0.2) 		30543.5
(3) 		28285.5
(1.2) 		22852.2
(-3) 		23557.5
(-2.4) 		7691
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3363
1 2 3 4 range
A 10763.9
(3)
P 		8206.1
(-1.6)
P 		9417.5
(0.6)
P 		7400.9
(-3)
P 		3363
B 10640.6
(3)
P 		8122.1
(-2.8)
P 		8398.9
(-2.1)
P 		8014.9
(-3)
P 		2626
C 9094.2
(0.8)
P 		9012.9
(0.6)
P 		9933.7
(3)
P 		7606.5
(-3)
P 		2327
avr 10166.2
(3) 		8447
(-1.1) 		9250
(0.8) 		7674.1
(-3) 		2492

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3109
1 2 3 4 5 6 range
A 6019.5
(-3)
P 		9128.5
(3)
P 		7137.2
(-0.8)
P 		7153.4
(-0.8)
P 		7018
(-1.1)
P 		6030.2
(-3)
P 		3109
B 8840.6
(3)
P 		8662.8
(2.5)
P 		7492.2
(-1.1)
P 		6851.1
(-3)
P 		8618.4
(2.3)
P 		8371
(1.6)
P 		1990
C 8462.3
(3)
P 		8401.5
(2.8)
P 		7127.5
(-0.5)
P 		6190.9
(-3)
P 		7794.2
(1.2)
P 		7852.1
(1.4)
P 		2271
avr 7774.1
(0.1) 		8730.9
(3) 		7252.3
(-1.4) 		6731.8
(-3) 		7810.2
(0.2) 		7417.8
(-0.9) 		1999
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173331_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27685
Sequence Type Exemplar sequence
Representative Public ID AV193835 NCBI
Target Description AV193835 /REP_DB=TREMBL Accession /GB=AV193835 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk622b10 : 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_066172(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066172 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-36) (rpl-36) mRNA, complete cds. 11/11 None
SNAP00000030588 ENSEMBL cdna:SNAP chromosome:CEL140:III:7178583:7180540:1 11/11 None
GENEFINDER00000030604 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7180176:7180540:1 11/11 None
F37C12.4.1 ENSEMBL cdna:known chromosome:CEL140:III:7180169:7180851:1 gene:F37C12.4 11/11 None
F37C12.4.3 ENSEMBL cdna:known chromosome:CEL140:III:7180169:7180601:1 gene:F37C12.4 11/11 None
F37C12.4.5 ENSEMBL cdna:known chromosome:CEL140:III:7180175:7180582:1 gene:F37C12.4 11/11 None
F37C12.4.2 ENSEMBL cdna:known chromosome:CEL140:III:7180175:7180851:1 gene:F37C12.4 11/11 None
F37C12.4.4 ENSEMBL cdna:known chromosome:CEL140:III:7180175:7181000:1 gene:F37C12.4 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
chrIII:7180183-7180569(+) 82.76 82.76
Public Domain and Genome References
Gene Title Ribosomal protein YL39
Gene Symbol rpl-36
Ensembl F37C12.4
Entrez Gene 176007 Entrez gene
SwissProt P49181 EMBL-EBI
WormBase CE30781 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:251926_AT 60S ribosomal protein L36 (RPL36B) at
DROSOPHILA_2:1624019_S_AT Ribosomal protein L36 dm
DROSGENOME1:152271_AT Ribosomal protein L36 dm
MG-U74CV2:170451_AT PREDICTED: similar to ribosomal protein L36 [Mus musculus], mRNA sequence mm
RAE230A:1398301_AT similar to ribosomal protein L36 rn
RAT230_2:1398301_AT similar to ribosomal protein L36 rn
YEAST_2:1774525_AT Protein component of the large (60S) ribosomal subunit, nearly identical to Rpl36Ap and has similarity to rat L36 ribosomal protein; binds to 5.8 S rRNA 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 T28834 hypothetical protein F37C12.4 - Caenorhabditis elegans 3.0E-52
blast AAC48295 Ribosomal protein, large subunit protein 36 [Caenorhabditis elegans] ref|NP_498573.2| Ribosomal Protein, Large subunit family member (rpl-36) [Caenorhabditis elegans] sp|P49181|RL36_CAEEL 60S ribosomal protein L36 4.0E-52
blast T28834 hypothetical protein F37C12.4 - Caenorhabditis elegans 4.0E-52
Protein Domains
Database ID Description E-Value
Pfam IPR000509 EMBL-EBI Ribosomal protein L36E 1.1E-67
Pfam IPR000509 EMBL-EBI Ribosomal protein L36E 1.1E-67
Sequence
Target Sequence 
>C. ELEGANS:173331_S_AT
gaattgaaggtttggccgtcggtctcaacaagggacatgctgctacccaacttccagtta
agcagcgtcaaaacagacacaagggagtcgcctccaagaagaccaagatcgtccgagagc
tcgttcgtgagatcaccggattcgctccatacgagcgtcgcgttctggaaatgcttcgta
tctccaaggacaagcgcgccctcaagttcttgaagagacgcatcggaacccaccgtcgtg
ctaagggaaagagagaggaactccaaaacgtcatcatcgctcaacgcaaagccca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATTGAAGGTTTGGCCGTCGGTCT 408 321 49 Antisense
GCCGTCGGTCTCAACAAGGGACATG 512 283 63 Antisense
CAAGGGACATGCTGCTACCCAACTT 698 183 77 Antisense
GCTACCCAACTTCCAGTTAAGCAGC 461 303 90 Antisense
AACAGACACAAGGGAGTCGCCTCCA 215 137 120 Antisense
GAAGACCAAGATCGTCCGAGAGCTC 373 339 146 Antisense
GTCCGAGAGCTCGTTCGTGAGATCA 99 477 159 Antisense
TTCGTGAGATCACCGGATTCGCTCC 74 695 172 Antisense
CGGATTCGCTCCATACGAGCGTCGC 674 243 185 Antisense
ACGAGCGTCGCGTTCTGGAAATGCT 447 93 199 Antisense
TCATCATCGCTCAACGCAAAGCCCA 354 621 319 Antisense
Sequence Source Affymetrix Proprietary Database