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[171940_x_at]

Description AU115385_rc /REP_DB=TREMBL Accession /GB=AU115385 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk732a6 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 02      6grp_high1_10_10 > 20      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 09      6grp_total > 32      4grp_total > 17      6grp_cgc > 60      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17840
1 2 3 4 range
A 26756.3
(-3)
P 		35291.4
(0.1)
P 		32769.4
(-0.8)
P 		43205.7
(3)
P 		16449
B 27409.8
(-3)
P 		28825.8
(-1.9)
P 		31125.3
(-0.1)
P 		35209.5
(3)
P 		7800
C 25365.7
(-3)
P 		27345.5
(-2.1)
P 		26024.4
(-2.7)
P 		39212.2
(3)
P 		13847
avr 26510.6
(-3) 		30487.6
(-1.1) 		29973
(-1.4) 		39209.1
(3) 		12699

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10406
1 2 3 4 5 6 range
A 28666.8
(3)
P 		23533.3
(-0.7)
P 		25490.7
(0.7)
P 		25322.5
(0.6)
P 		20342.5
(-3)
P 		23514
(-0.7)
P 		8324
B 23465.2
(3)
P 		22996.3
(2.5)
P 		23350.9
(2.9)
P 		21689.7
(1)
P 		19363.5
(-1.7)
P 		18260.8
(-3)
P 		5204
C 22516.5
(-0.9)
P 		22892.9
(-0.5)
P 		26186.2
(3)
P 		25055.7
(1.8)
P 		23026.5
(-0.4)
P 		20546.3
(-3)
P 		5640
avr 24882.8
(2.8) 		23140.8
(0.4) 		25009.3
(3) 		24022.6
(1.6) 		20910.8
(-2.8) 		20773.7
(-3) 		4236
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3418
1 2 3 4 range
A 9742
(3)
P 		7660.8
(-0.7)
P 		8566.6
(0.9)
P 		6324.5
(-3)
P 		3418
B 8740.8
(3)
P 		7119.3
(-3)
P 		7212.5
(-2.7)
P 		7503.2
(-1.6)
P 		1622
C 8396.8
(1.4)
P 		7862
(0.1)
P 		9070.3
(3)
P 		6611.8
(-3)
P 		2459
avr 8959.9
(3) 		7547.4
(-0.9) 		8283.1
(1.1) 		6813.2
(-3) 		2147

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3331
1 2 3 4 5 6 range
A 5284.5
(-3)
P 		8369.6
(3)
P 		5551.3
(-2.5)
P 		6422.4
(-0.8)
P 		6138.5
(-1.3)
P 		5724.9
(-2.1)
P 		3085
B 8164.7
(3)
P 		7654.5
(1.8)
P 		5670.3
(-3)
P 		5744.8
(-2.8)
P 		7867.1
(2.3)
P 		6809.4
(-0.3)
P 		2494
C 8345.9
(3)
P 		6985.3
(0.5)
P 		6664.8
(-0)
P 		5038.7
(-3)
P 		7451
(1.4)
P 		6878
(0.3)
P 		3307
avr 7265
(1.7) 		7669.8
(3) 		5962.1
(-2.3) 		5735.3
(-3) 		7152.2
(1.4) 		6470.8
(-0.7) 		1935
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171940_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27829
Sequence Type Exemplar sequence
Representative Public ID AU115385 NCBI
Target Description AU115385_rc /REP_DB=TREMBL Accession /GB=AU115385 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk732a6 : 3prime 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_060990(10), NM_060991(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060990 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-31) (rpl-31) mRNA, complete cds. 10/11 A 
NM_060991 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-31) (rpl-31) mRNA, complete cds. 10/11 A 
SNAP00000012968 ENSEMBL cdna:SNAP chromosome:CEL140:I:13661110:13667244:-1 10/11 None
GENEFINDER00000013011 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:13661110:13661803:-1 10/11 None
W09C5.6a.1 ENSEMBL cdna:known chromosome:CEL140:I:13661057:13661822:-1 gene:W09C5.6 10/11 A 
W09C5.6a.2 ENSEMBL cdna:known chromosome:CEL140:I:13661064:13662196:-1 gene:W09C5.6 10/11 A 
W09C5.6b.1 ENSEMBL cdna:known chromosome:CEL140:I:13661110:13661814:-1 gene:W09C5.6 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
W09C5.6b.3 8/11 Cross Hyb Matching Probes A 
W09C5.6b.4 8/11 Cross Hyb Matching Probes A 
W09C5.6b.5 8/11 Cross Hyb Matching Probes A 
W09C5.6b.2 8/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:13661049-13661697(-) 94.64 94.64
Public Domain and Genome References
Ensembl W09C5.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB63334 Hypothetical protein W09C5.8 [Caenorhabditis elegans] ref|NP_493394.1| W09C5.8 [Caenorhabditis elegans] 7.0E-99
blast CAE72582 Hypothetical protein CBG19770 [Caenorhabditis briggsae] 2.0E-92
blast CAB63331 Hypothetical protein W09C5.6a [Caenorhabditis elegans] ref|NP_493391.1| Ribosomal Protein, Large subunit family member (rpl-31) [Caenorhabditis elegans] sp|Q9U332|RL31_CAEEL 60S ribosomal protein L31 7.0E-59
blast CAB63331 Hypothetical protein W09C5.6a [Caenorhabditis elegans] ref|NP_493391.1| Ribosomal Protein, Large subunit family member (rpl-31) [Caenorhabditis elegans] sp|Q9U332|RL31_CAEEL 60S ribosomal protein L31 4.0E-58
blast CAE72584 Hypothetical protein CBG19772 [Caenorhabditis briggsae] 6.0E-54
Protein Domains
Database ID Description E-Value
Pfam IPR000054 EMBL-EBI Ribosomal protein L31e 6.0E-56
Pfam IPR004203 EMBL-EBI Cytochrome c oxidase subunit IV 1.7E-78
Pfam IPR000054 EMBL-EBI Ribosomal protein L31e 6.0E-56
Pfam IPR000054 EMBL-EBI Ribosomal protein L31e 2.0E-31
Sequence
Target Sequence 
>C. ELEGANS:171940_X_AT
ggaggttgtcaccggtaatacaccattcacatccacgcccgcatcagaggaatcggatcc
aagaagcgtgctccacgtgccatcgacgagatcaagaagttcgccaagatccagatgaag
accaacgatgtgcgtgtcgacaccaagctcaacaagttcatctggtccaagggaatcaag
aacgttccatacagagttcgtgtccgtctctcccgccgccgtaacgaggatgaggactcc
gctcaaaagctctac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGGTTGTCACCGGTAATACACCA 529 513 17 Antisense
TCCACGCCCGCATCAGAGGAATCGG 188 589 48 Antisense
ATCGGATCCAAGAAGCGTGCTCCAC 701 33 68 Antisense
TCCACGTGCCATCGACGAGATCAAG 607 587 88 Antisense
AAGAAGTTCGCCAAGATCCAGATGA 136 153 110 Antisense
GACCAACGATGTGCGTGTCGACACC 231 383 136 Antisense
GTCGACACCAAGCTCAACAAGTTCA 283 473 152 Antisense
CAACAAGTTCATCTGGTCCAAGGGA 265 189 166 Antisense
GTTCCATACAGAGTTCGTGTCCGTC 355 441 200 Antisense
CCCGCCGCCGTAACGAGGATGAGGA 675 259 228 Antisense
TGAGGACTCCGCTCAAAAGCTCTAC 617 565 247 Antisense
Sequence Source Affymetrix Proprietary Database