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[173380_at]

Description AU116406_rc /REP_DB=TREMBL Accession /GB=AU116406 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk744d1 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 14      6grp_high1_10_10 > 30      4grp_highest_8_8 > 06      4grp_high_8_8 > 22      6grp_highest_nonorm > 09      6grp_total > 32      4grp_total > 25      6grp_cgc > 71      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17248
1 2 3 4 range
A 27534.7
(-3)
P 		41351.4
(2.4)
P 		34158.9
(-0.4)
P 		42817.1
(3)
P 		15282
B 28693.2
(-3)
P 		30944.6
(-1.1)
P 		34876
(2.3)
P 		35633.3
(3)
P 		6940
C 25848.5
(-3)
P 		27950.3
(-2.3)
P 		26520.1
(-2.8)
P 		43096.5
(3)
P 		17248
avr 27358.8
(-3) 		33415.4
(-0.2) 		31851.7
(-1) 		40515.6
(3) 		13157

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7754
1 2 3 4 5 6 range
A 28378.9
(3)
P 		23745.1
(-1.1)
P 		26728.6
(1.5)
P 		25352.3
(0.3)
P 		21588.5
(-3)
P 		25220.4
(0.2)
P 		6790
B 23698.5
(0.5)
P 		24374.5
(1.2)
P 		25923.5
(3)
P 		22364.8
(-1)
P 		21329.8
(-2.2)
P 		20625.4
(-3)
P 		5298
C 22313.3
(-1.8)
P 		24954.6
(2.7)
P 		24999.8
(2.8)
P 		25125.6
(3)
P 		24360.2
(1.7)
P 		21644.7
(-3)
P 		3481
avr 24796.9
(1.1) 		24358.1
(0.4) 		25884
(3) 		24280.9
(0.2) 		22426.2
(-3) 		22496.8
(-2.9) 		3458
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3758
1 2 3 4 range
A 10025.4
(3)
P 		8976.3
(1.3)
P 		8929.8
(1.3)
P 		6267.6
(-3)
P 		3758
B 9150
(3)
P 		7642.6
(-2.8)
P 		8081.6
(-1.1)
P 		7593.5
(-3)
P 		1557
C 8556.6
(0.9)
P 		8035.9
(-0.7)
P 		9243.1
(3)
P 		7266.7
(-3)
P 		1976
avr 9244
(3) 		8218.3
(0.2) 		8751.5
(1.7) 		7042.6
(-3) 		2201

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3613
1 2 3 4 5 6 range
A 5231.4
(-3)
P 		8444.9
(3)
P 		5820.9
(-1.9)
P 		6429.9
(-0.8)
P 		6514.5
(-0.6)
P 		6140.4
(-1.3)
P 		3214
B 8245.9
(2.1)
P 		8113.2
(1.8)
P 		6295
(-2.2)
P 		5923.7
(-3)
P 		8666
(3)
P 		7691.1
(0.9)
P 		2742
C 8270.6
(3)
P 		7614.4
(1.8)
P 		6362.9
(-0.6)
P 		5052.8
(-3)
P 		7882.6
(2.3)
P 		7245.7
(1.1)
P 		3218
avr 7249.3
(0.8) 		8057.5
(3) 		6159.6
(-2) 		5802.1
(-3) 		7687.7
(2) 		7025.7
(0.3) 		2255
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173380_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27924
Sequence Type Exemplar sequence
Representative Public ID AU116406 NCBI
Target Description AU116406_rc /REP_DB=TREMBL Accession /GB=AU116406 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk744d1 : 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_170799(10), NM_171832(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_170799 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-17) (rpl-17) mRNA, complete cds. 10/11 None
NM_171832 NCBI Caenorhabditis elegans Ribosomal Protein, Large subunit family member (rpl-17) (rpl-17) mRNA, complete cds. 9/11 None
SNAP00000040526 ENSEMBL cdna:SNAP chromosome:CEL140:I:1156599:1157421:1 10/11 None
GENEFINDER00000040552 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:1156599:1157421:1 10/11 None
Y48G8AL.8a.3 ENSEMBL cdna:known chromosome:CEL140:I:1156579:1157454:1 gene:Y48G8AL.8 10/11 None
Y48G8AL.8b ENSEMBL cdna:known chromosome:CEL140:I:1156579:1157464:1 gene:Y48G8AL.8 9/11 None
Y48G8AL.8a.1 ENSEMBL cdna:known chromosome:CEL140:I:1156579:1157459:1 gene:Y48G8AL.8 10/11 None
Y48G8AL.8a.2 ENSEMBL cdna:known chromosome:CEL140:I:1156581:1157589:1 gene:Y48G8AL.8 10/11 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
chrI:1156822-1157448(+) 99.19 99.19
Public Domain and Genome References
Ensembl Y48G8AL.8
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK29902 Ribosomal protein, large subunit protein 17, isoform a [Caenorhabditis elegans] ref|NP_740781.1| Ribosomal Protein, Large subunit family member (rpl-17) [Caenorhabditis elegans] 1.0E-105
blast CAE63933 Hypothetical protein CBG08510 [Caenorhabditis briggsae] 1.0E-102
Protein Domains
Database ID Description E-Value
Pfam IPR001063 EMBL-EBI Ribosomal protein L22/L17 1.1E-57
Pfam IPR001063 EMBL-EBI Ribosomal protein L22/L17 4.6E-37
Sequence
Target Sequence 
>C. ELEGANS:173380_AT
ggaacaccacccaggggagatggccagtcaagtccgctgacttcctcctcgatctcttga
agaacgctgagagcaacgccgagtacaaggggctcgatgttgaccacctcgttattgagc
acatcaacgttcaacgcgctgccaagctccgcagaagaacataccgtgcccacggaagaa
tcaacccatacatgtcttccccatgccacatcgaggtcatcttggccgagaaggaggatg
ttgtctccaagccaaccgatgatgccgcaccaaaagtcaagaaggagtcgaagagaaagc
cacgccgcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAACACCACCCAGGGGAGATGGCC 160 529 21 Antisense
GAACGCTGAGAGCAACGCCGAGTAC 110 347 82 Antisense
ACAAGGGGCTCGATGTTGACCACCT 670 113 105 Antisense
GACCACCTCGTTATTGAGCACATCA 82 385 122 Antisense
AGCACATCAACGTTCAACGCGCTGC 349 77 138 Antisense
CGCAGAAGAACATACCGTGCCCACG 210 251 170 Antisense
CGTGCCCACGGAAGAATCAACCCAT 167 245 185 Antisense
GCCACATCGAGGTCATCTTGGCCGA 11 279 225 Antisense
ATGTTGTCTCCAAGCCAACCGATGA 64 47 258 Antisense
AACCGATGATGCCGCACCAAAAGTC 288 147 274 Antisense
GAGTCGAAGAGAAAGCCACGCCGCC 150 399 305 Antisense
Sequence Source Affymetrix Proprietary Database