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[171797_x_at]

Description C65963 /REP_DB=TREMBL Accession /GB=C65963 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk202f5 : 5prime end, single read.
Cluster 6grp_highest_10_10 > 23      6grp_high1_10_10 > 12      4grp_highest_8_8 > 14      4grp_high_8_8 > 15      6grp_highest_nonorm > 09      6grp_total > 23      4grp_total > 08      6grp_highest_sub > 01_02_03      6grp_cgc > 34      6grp_high1_sub > De      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13889
1 2 3 4 range
A 28063.3
(-3)
P 		32252.2
(-0.9)
P 		35654.1
(0.9)
P 		39774.2
(3)
P 		11711
B 31162.1
(-1.8)
P 		29657.5
(-3)
P 		32201.6
(-1)
P 		37435.4
(3)
P 		7778
C 26509.6
(-2.7)
P 		26953.5
(-2.4)
P 		25885
(-3)
P 		36741.8
(3)
P 		10857
avr 28578.3
(-3) 		29621.1
(-2.3) 		31246.9
(-1.3) 		37983.8
(3) 		9406

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 6731
1 2 3 4 5 6 range
A 26678.9
(3)
P 		23304.8
(-0.1)
P 		24587.6
(1.1)
P 		23395.2
(0)
P 		20102.6
(-3)
P 		23189.2
(-0.2)
P 		6576
B 21742.3
(0.7)
P 		22831.2
(3)
P 		22550.1
(2.4)
P 		21711.9
(0.7)
P 		19947.5
(-3)
P 		20274.6
(-2.3)
P 		2884
C 23049.4
(-0.8)
P 		26109.9
(3)
P 		24422.7
(0.9)
P 		22084.7
(-2)
P 		23612.7
(-0.1)
P 		21308.4
(-3)
P 		4802
avr 23823.5
(2.5) 		24082
(3) 		23853.5
(2.5) 		22397.3
(-0.5) 		21220.9
(-3) 		21590.7
(-2.2) 		2861
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 4396
1 2 3 4 range
A 10217.8
(3)
P 		7001.1
(-1.4)
P 		9320.7
(1.8)
P 		5822.2
(-3)
P 		4396
B 9937.3
(3)
P 		7324.7
(-3)
P 		7461.8
(-2.7)
P 		7977.5
(-1.5)
P 		2613
C 8775.4
(2.5)
P 		7749.3
(0.3)
P 		9021.7
(3)
P 		6195.2
(-3)
P 		2827
avr 9643.5
(3) 		7358.4
(-1.6) 		8601.4
(0.9) 		6665
(-3) 		2979

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4102
1 2 3 4 5 6 range
A 4918
(-3)
P 		8288.3
(3)
P 		5354.7
(-2.2)
P 		5933.6
(-1.2)
P 		6066.1
(-1)
P 		5645.8
(-1.7)
P 		3370
B 7565.3
(1.8)
P 		7599.5
(1.8)
P 		5475.8
(-3)
P 		5750.7
(-2.4)
P 		8104.4
(3)
P 		7560.3
(1.8)
P 		2629
C 8543.4
(3)
P 		7966.9
(2.2)
P 		6216
(-0.4)
P 		4441.2
(-3)
P 		7640.7
(1.7)
P 		7133.2
(0.9)
P 		4102
avr 7008.9
(0.8) 		7951.6
(3) 		5682.2
(-2.3) 		5375.2
(-3) 		7270.4
(1.4) 		6779.8
(0.3) 		2576
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171797_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28028
Sequence Type Exemplar sequence
Representative Public ID C65963 NCBI
Target Description C65963 /REP_DB=TREMBL Accession /GB=C65963 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk202f5 : 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 Genome Target Overlap based pipeline to a RefSeq,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_058660, NM_058661, NR_002354, NR_002353, AJ270980
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
Y71F9AL.13a.1 ENSEMBL cdna:known chromosome:CEL140:I:2875393:2876313:-1 gene:Y71F9AL.13 A 
Y71F9AL.13a.3 ENSEMBL cdna:known chromosome:CEL140:I:2875393:2876637:-1 gene:Y71F9AL.13 None
Y71F9AL.13a.2 ENSEMBL cdna:known chromosome:CEL140:I:2875393:2876309:-1 gene:Y71F9AL.13 A 
Y71F9AL.13b.3 ENSEMBL cdna:known chromosome:CEL140:I:2875425:2876309:-1 gene:Y71F9AL.13 A 
Y71F9AL.13b.5 ENSEMBL cdna:known chromosome:CEL140:I:2875426:2876178:-1 gene:Y71F9AL.13 A 
AJ270980 NCBI Caenorhabditis elegans partial mRNA for 60s ribosomal protein L10A (rpl10A gene), strain N2. A 
Y71F9AL.13b.6 ENSEMBL cdna:known chromosome:CEL140:I:2875432:2876308:-1 gene:Y71F9AL.13 A 
Y71F9AL.13b.7 ENSEMBL cdna:known chromosome:CEL140:I:2875432:2875975:-1 gene:Y71F9AL.13 A 
Y71F9AL.13b.4 ENSEMBL cdna:known chromosome:CEL140:I:2875432:2876309:-1 gene:Y71F9AL.13 A 
NR_002353 NCBI Caenorhabditis elegans rpl-1, miscRNA. None
NR_002354 NCBI Caenorhabditis elegans rpl-1, miscRNA. None
Y71F9AL.13b.1 ENSEMBL cdna:known chromosome:CEL140:I:2875432:2876287:-1 gene:Y71F9AL.13 A 
Y71F9AL.13b.2 ENSEMBL cdna:known chromosome:CEL140:I:2875432:2876309:-1 gene:Y71F9AL.13 A 
SNAP00000005885 ENSEMBL cdna:SNAP chromosome:CEL140:I:2875432:2876303:-1 None
GENEFINDER00000005901 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:2875432:2876303:-1 None
NM_058661 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-1) (rpl-1) mRNA, complete cds. A 
NM_058660 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-1) (rpl-1) mRNA, complete cds. A 
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
chrI:2875404-2875812(-) 89.06 89.06
Public Domain and Genome References
Ensembl Y71F9AL.13
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF36008 Ribosomal protein, large subunit protein 1, isoform a [Caenorhabditis elegans] ref|NP_491061.1| Ribosomal Protein, Large subunit family member (rpl-1) [Caenorhabditis elegans] sp|Q9N4I4|RL10A_CAEEL 60S ribosomal protein L10a 1.0E-106
blast CAE60592 Hypothetical protein CBG04228 [Caenorhabditis briggsae] 1.0E-104
Protein Domains
Database ID Description E-Value
Pfam IPR002143 EMBL-EBI Ribosomal protein L1 4.9E-89
Pfam IPR002143 EMBL-EBI Ribosomal protein L1 1.4E-64
Pfam IPR002143 EMBL-EBI Ribosomal protein L1 2.3E-73
Sequence
Target Sequence 
>C. ELEGANS:171797_X_AT
ctttcttcgcttcggatcattgatcaagcagatcccacgtatcctcggtccaggactcaa
caaggccggaaannttcccttccgtcgttacccccgggagaatctctccaaagcaagagt
gacgagatccgcgccaccgtcaagttccagatgaagaaggttctctgcctctccgtcgcc
gtcggtcaacgttggactcacccaggaggagcttgtctccaacatctccctctccatcaa
cttcctcgtctcgctcttgaagaagaactggcagaacgtgagatcgttgaacatcaagtc
caccatggga

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTTTCTTCGCTTCGGATCATTGATC 269 223 21 Antisense
TGATCAAGCAGATCCCACGTATCCT 363 565 41 Antisense
GTATCCTCGGTCCAGGACTCAACAA 535 451 59 Antisense
TACCCCCGGGAGAATCTCTCCAAAG 631 649 109 Antisense
AGCAAGAGTGACGAGATCCGCGCCA 528 75 132 Antisense
GCCACCGTCAAGTTCCAGATGAAGA 58 281 153 Antisense
AGATGAAGAAGGTTCTCTGCCTCTC 675 67 169 Antisense
TCAACGTTGGACTCACCCAGGAGGA 292 629 206 Antisense
AGGAGGAGCTTGTCTCCAACATCTC 338 57 224 Antisense
TCCTCGTCTCGCTCTTGAAGAAGAA 480 593 263 Antisense
GTTGAACATCAAGTCCACCATGGGA 291 439 306 Antisense
Sequence Source Affymetrix Proprietary Database