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[173591_at]

Description CEK021A1R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F43G6.9 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D32749 /WB_GENE_ID=F43G6.9 /WP=CE18675 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk21a1 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 85      6grp_high1_10_10 > 57      4grp_highest_8_8 > 49      4grp_high_8_8 > 41      6grp_highest_nonorm > 58      6grp_total > 58      4grp_total > 54      6grp_highest_sub > Cu      6grp_cgc > 28      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1332
1 2 3 4 range
A 2382.8
(3)
P 		2221.8
(1.8)
P 		1753.4
(-1.7)
P 		1574.6
(-3)
P 		808
B 2750.4
(3)
P 		2216.5
(-1.1)
P 		2205.7
(-1.2)
P 		1967.2
(-3)
P 		783
C 2907
(3)
P 		2001.6
(-1.8)
P 		2299.3
(-0.2)
P 		1781.3
(-3)
P 		1126
avr 2680.1
(3) 		2146.6
(-0.5) 		2086.1
(-0.9) 		1774.4
(-3) 		906

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1873
1 2 3 4 5 6 range
A 3296.6
(1.3)
P 		2517.7
(-1.2)
P 		2150.3
(-2.3)
P 		1941.5
(-3)
P 		2612.3
(-0.9)
P 		3814
(3)
P 		1873
B 2774.1
(-0.1)
P 		2360.5
(-1.5)
P 		2446.8
(-1.2)
P 		2254.7
(-1.9)
P 		1942.2
(-3)
P 		3637.1
(3)
P 		1695
C 2883.2
(-0.3)
P 		2168.8
(-3)
P 		2462.1
(-1.9)
P 		2184.3
(-2.9)
P 		2582.1
(-1.4)
P 		3739.8
(3)
P 		1571
avr 2984.6
(0.2) 		2349
(-2.2) 		2353.1
(-2.2) 		2126.8
(-3) 		2378.9
(-2.1) 		3730.3
(3) 		1604
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 732
1 2 3 4 range
A 867.6
(3)
P 		482.3
(-0.6)
P 		458.4
(-0.9)
P 		230.5
(-3)
P 		637
B 877.1
(3)
P 		547.4
(-1.3)
P 		511.1
(-1.8)
P 		419.2
(-3)
P 		458
C 962.3
(3)
P 		575.5
(-0.5)
P 		801.4
(1.5)
P 		300.4
(-3)
P 		662
avr 902.3
(3) 		535.1
(-0.8) 		590.3
(-0.2) 		316.7
(-3) 		586

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 917
1 2 3 4 5 6 range
A 607.7
(-1.2)
P 		895.4
(2.6)
P 		468.3
(-3)
P 		492.4
(-2.7)
P 		788.3
(1.2)
P 		928.6
(3)
P 		460
B 965.3
(-0.1)
P 		785.7
(-1.5)
P 		594.2
(-3)
P 		597.2
(-3)
P 		789.1
(-1.5)
P 		1356.3
(3)
P 		762
C 1068.7
(1.6)
P 		661.8
(-1.4)
P 		626.7
(-1.6)
P 		439.3
(-3)
P 		835.5
(-0.1)
P 		1251.9
(3)
P 		813
avr 880.6
(0.3) 		781
(-0.6) 		563.1
(-2.5) 		509.6
(-3) 		804.3
(-0.4) 		1178.9
(3) 		669
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173591_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.23424
Sequence Type Exemplar sequence
Representative Public ID CEK021A1R NCBI
Target Description CEK021A1R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F43G6.9 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D32749 /WB_GENE_ID=F43G6.9 /WP=CE18675 /CHR=2 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk21a1 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic 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_064113(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064113 NCBI Caenorhabditis elegans yeast PAT1(protein associated with topo II) Related family member (patr-1) (patr-1) mRNA, complete cds. 11/11 None
F43G6.9.1 ENSEMBL cdna:known chromosome:CEL140:II:11774575:11777848:-1 gene:F43G6.9 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
chrII:11774595-11777823(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol patr-1
Ensembl F43G6.9
Entrez Gene 174808 Entrez gene
SwissProt Q20374 EMBL-EBI
WormBase CE18675 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA90402 Hypothetical protein F43G6.9 [Caenorhabditis elegans] emb|CAB05512.1| Hypothetical protein F43G6.9 [Caenorhabditis elegans] ref|NP_496514.1| yeast PAT1(protein associated with topo II) Related family member (patr-1) [Caenorhabditis elegans] 0.0
blast CAE59697 Hypothetical protein CBG03125 [Caenorhabditis briggsae] 0.0
Sequence
Target Sequence 
>C. ELEGANS:173591_AT
accagagagatgaccttattgtgacattttcctctcaacccctaattttttgcatttccc
aaaattgaactcacccccaatgatcccccatacggccctactgaatcattccgtccgttt
agtatcacattatcactttgtctgtgaaacttgatgttggttcttgtcacatgctaactt
atcccaagctcgatattcgatatcattatatattgcgtaatatacgtgtctaatattctc
tcctaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACCAGAGAGATGACCTTATTGTGAC 616 85 2534 Antisense
TTATTGTGACATTTTCCTCTCAACC 145 679 2549 Antisense
CCTCTCAACCCCTAATTTTTTGCAT 433 267 2564 Antisense
AAAATTGAACTCACCCCCAATGATC 662 131 2594 Antisense
TACGGCCCTACTGAATCATTCCGTC 629 645 2624 Antisense
TCATTCCGTCCGTTTAGTATCACAT 280 619 2639 Antisense
AGTATCACATTATCACTTTGTCTGT 304 63 2654 Antisense
GAAACTTGATGTTGGTTCTTGTCAC 523 355 2679 Antisense
TCTTGTCACATGCTAACTTATCCCA 710 617 2695 Antisense
AACTTATCCCAAGCTCGATATTCGA 379 137 2709 Antisense
ATACGTGTCTAATATTCTCTCCTAA 618 23 2755 Antisense
Sequence Source Affymetrix Proprietary Database