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[174827_at]

Description CEK043H2R_rc /REP_DB=TREMBL Accession /GB=D34293 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk43h2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 0      6grp_high1_10_10 > 0      4grp_highest_8_8 > 08      4grp_high_8_8 > 44      6grp_highest_nonorm > 45      6grp_total > 09      4grp_total > 51      6grp_cgc > 50      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2442
1 2 3 4 range
A 1965.4
(0.8)
P 		2724.1
(3)
P 		2428.6
(2.2)
P 		624.5
(-3)
P 		2100
B 1921.1
(0.9)
P 		2654.4
(3)
P 		1881.1
(0.8)
P 		537
(-3)
P 		2117
C 1830.3
(0.1)
P 		2978.5
(3)
P 		2343.9
(1.4)
P 		609.8
(-3)
P 		2369
avr 1905.6
(0.6) 		2785.7
(3) 		2217.9
(1.4) 		590.4
(-3) 		2195

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3303
1 2 3 4 5 6 range
A 3438
(3)
P 		2255.2
(-0.1)
P 		2558
(0.7)
P 		2919.6
(1.6)
P 		2545.4
(0.6)
P 		1164.1
(-3)
P 		2274
B 2800.9
(1)
P 		2179.2
(-0.4)
P 		1351.6
(-2.3)
P 		3686.1
(3)
P 		2088.8
(-0.6)
P 		1031.7
(-3)
P 		2654
C 3192.2
(0.9)
P 		2316.4
(-0.7)
P 		2982.1
(0.5)
P 		4334.3
(3)
P 		2177.9
(-1)
P 		1089.4
(-3)
P 		3245
avr 3143.7
(1.8) 		2250.3
(-0.3) 		2297.2
(-0.2) 		3646.7
(3) 		2270.7
(-0.2) 		1095.1
(-3) 		2552
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 765
1 2 3 4 range
A 715.6
(3)
P 		591.3
(1.8)
P 		634.9
(2.2)
P 		91.4
(-3)
P 		624
B 612.6
(2.5)
P 		655.6
(3)
P 		435.9
(0.6)
P 		114.4
(-3)
P 		541
C 605.9
(1)
P 		856.3
(3)
P 		816.9
(2.7)
P 		102.8
(-3)
P 		754
avr 644.7
(2.4) 		701.1
(3) 		629.2
(2.3) 		102.9
(-3) 		598

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 900
1 2 3 4 5 6 range
A 633.8
(1.1)
P 		802.1
(3)
P 		557.1
(0.2)
P 		740.5
(2.3)
P 		768.1
(2.6)
P 		283.4
(-3)
P 		519
B 974.6
(3)
P 		725.4
(0.7)
P 		328.2
(-3)
P 		976.3
(3)
P 		848.6
(1.8)
P 		384.7
(-2.5)
P 		648
C 1183.2
(3)
P 		706.8
(-0.5)
P 		759
(-0.1)
P 		871.6
(0.7)
P 		704.7
(-0.5)
P 		364.7
(-3)
P 		819
avr 930.5
(3) 		744.8
(1.1) 		548.1
(-0.9) 		862.8
(2.3) 		773.8
(1.4) 		344.3
(-3) 		586
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174827_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21187
Sequence Type Exemplar sequence
Representative Public ID CEK043H2R NCBI
Target Description CEK043H2R_rc /REP_DB=TREMBL Accession /GB=D34293 /CHR=3 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk43h2 : 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_065523(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065523 NCBI Caenorhabditis elegans P-granule Associated Novel protein family member (pan-1) (pan-1) mRNA, complete cds. 11/11 None
M88.6a ENSEMBL cdna:known chromosome:CEL140:III:4562703:4566237:1 gene:M88.6 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175596 2 1 NM_065523 174827_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:4565849-4566212(+) 100.0 100.0
Public Domain and Genome References
Ensembl M88.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA84337 Hypothetical protein M88.6a [Caenorhabditis elegans] ref|NP_497924.1| P-granule Associated Novel protein family member (pan-1) [Caenorhabditis elegans] 0.0
blast CAB54282 Hypothetical protein M88.6b [Caenorhabditis elegans] ref|NP_497925.1| P-granule Associated Novel protein family member (pan-1) [Caenorhabditis elegans] 0.0
blast CAE71185 Hypothetical protein CBG18042 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.42
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0013
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0042
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 8.2E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.0041
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.011
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.44
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.019
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.32
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497924.1 1 532-554
M88.6a 1 532-554
Sequence
Target Sequence 
>C. ELEGANS:174827_AT
aaaatttcataacctcaaatcaacaaaaaaacactcactggataataataattcatattc
tccccggttgaatacctcatttttcttcgcttttcttcttctgtaaatagccatttgaaa
agttttcttttctattccttctctcgtcccaacccccaactcgatacgtgttctttcatt
tttcttgttttctcaatctctctcttcaatacttctctctctcaccccttctgaaccacc
caacttatcaggtatccaccactgatctttttgaaatcttcatcgaacaagttttcaaca
tgtacctataggcaccgcgatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAATTTCATAACCTCAAATCAACA 640 133 14 Antisense
AATAATAATTCATATTCTCCCCGGT 189 149 57 Antisense
TATTCTCCCCGGTTGAATACCTCAT 224 661 69 Antisense
TGAATACCTCATTTTTCTTCGCTTT 629 575 82 Antisense
CCCAACTCGATACGTGTTCTTTCAT 124 259 168 Antisense
TCGATACGTGTTCTTTCATTTTTCT 268 599 174 Antisense
CCTTCTGAACCACCCAACTTATCAG 112 269 240 Antisense
CCAACTTATCAGGTATCCACCACTG 145 277 253 Antisense
AAATCTTCATCGAACAAGTTTTCAA 218 117 287 Antisense
GAACAAGTTTTCAACATGTACCTAT 141 353 298 Antisense
ACATGTACCTATAGGCACCGCGATC 142 107 311 Antisense
Sequence Source Affymetrix Proprietary Database