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[191828_at]

Description R08E3.1 /REP_DB=WormBase Gene ID /WP=CE04822 /TR=Q21850 /GB=AAC48194.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=LDL receptor-related protein
Cluster 6grp_highest_10_10 > 35      6grp_high1_10_10 > 42      4grp_highest_8_8 > 25      4grp_high_8_8 > 59      6grp_highest_nonorm > 34      6grp_total > 20      4grp_total > 60      6grp_highest_sub > 03      6grp_high1_sub > 02_03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2739
1 2 3 4 range
A 2768.6
(1.7)
P 		3086.5
(2.5)
P 		3271.5
(3)
P 		892.6
(-3)
P 		2379
B 3042.7
(2.3)
P 		2848.1
(1.8)
P 		3349.3
(3)
P 		857.3
(-3)
P 		2492
C 2886.8
(1.9)
P 		2756.9
(1.6)
P 		3401.9
(3)
P 		663.3
(-3)
P 		2739
avr 2899.4
(2) 		2897.2
(2) 		3340.9
(3) 		804.4
(-3) 		2537

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1783
1 2 3 4 5 6 range
A 1920.2
(-2.6)
P 		3106.3
(3)
P 		2749.7
(1.3)
P 		2315.1
(-0.7)
P 		2527.5
(0.3)
P 		1834.6
(-3)
P 		1272
B 2198.7
(-1.6)
P 		2780.1
(0.9)
P 		3271.7
(3)
P 		2848.2
(1.2)
P 		1886.6
(-3)
P 		1989.4
(-2.6)
P 		1385
C 2253.2
(-1.3)
P 		2856.4
(0.8)
P 		3519.4
(3)
P 		2003.5
(-2.1)
P 		2577.7
(-0.2)
P 		1736.4
(-3)
P 		1783
avr 2124
(-1.8) 		2914.3
(1.8) 		3180.3
(3) 		2388.9
(-0.6) 		2330.6
(-0.8) 		1853.5
(-3) 		1327
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1074
1 2 3 4 range
A 1008
(3)
P 		670
(0.7)
P 		855.2
(2)
P 		130.7
(-3)
P 		877
B 970.3
(3)
P 		703.4
(1)
P 		776.1
(1.5)
P 		182.7
(-3)
P 		788
C 955.6
(1.7)
P 		792.6
(0.8)
P 		1185.7
(3)
P 		111.8
(-3)
P 		1074
avr 978
(3) 		722
(1.2) 		939
(2.7) 		141.7
(-3) 		836

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 751
1 2 3 4 5 6 range
A 354
(-3)
P 		1104.8
(3)
P 		598.8
(-1)
P 		587.2
(-1.1)
P 		762.7
(0.3)
P 		446.7
(-2.3)
P 		751
B 765
(-2.2)
P 		925.4
(3)
P 		794.5
(-1.3)
P 		754.4
(-2.6)
P 		766.5
(-2.2)
P 		741.8
(-3)
P 		184
C 835.1
(2.3)
P 		871.6
(2.7)
P 		895.8
(3)
P 		402.9
(-3)
P 		834.1
(2.2)
P 		581.3
(-0.8)
P 		493
avr 651.4
(-1.9) 		967.3
(3) 		763
(-0.2) 		581.5
(-3) 		787.8
(0.2) 		589.9
(-2.9) 		386
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191828_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16706
Sequence Type Exemplar sequence
Representative Public ID R08E3.1 NCBI
Target Description R08E3.1 /REP_DB=WormBase Gene ID /WP=CE04822 /TR=Q21850 /GB=AAC48194.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=LDL receptor-related protein
Cluster Evidence This cluster is supported by a Sanger Annotation.
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_001029675(11), NM_001029676(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029675 NCBI Caenorhabditis elegans R08E3.1a (R08E3.1) mRNA, complete cds. 11/11 None
NM_001029676 NCBI Caenorhabditis elegans R08E3.1b (R08E3.1) mRNA, complete cds. 11/11 None
SNAP00000006864 ENSEMBL cdna:SNAP chromosome:CEL140:X:4822630:4834753:1 11/11 None
GENEFINDER00000006867 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:4822630:4834753:1 11/11 None
R08E3.1b ENSEMBL cdna:known chromosome:CEL140:X:4824971:4834846:1 gene:R08E3.1 11/11 A 
R08E3.1a ENSEMBL cdna:known chromosome:CEL140:X:4824971:4834847:1 gene:R08E3.1 11/11 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
chrX:4824971-4834754(+) 100.0 100.0
Public Domain and Genome References
Ensembl R08E3.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC48194 Hypothetical protein R08E3.1a [Caenorhabditis elegans] ref|NP_001024846.1| R08E3.1a [Caenorhabditis elegans] 0.0
blast AAP46276 Hypothetical protein R08E3.1b [Caenorhabditis elegans] ref|NP_001024847.1| R08E3.1b [Caenorhabditis elegans] 0.0
blast CAE68720 Hypothetical protein CBG14646 [Caenorhabditis briggsae] 0.0
Sequence
Target Sequence 
>C. ELEGANS:191828_AT
cgaactgcattaacggcgttcccgtattatgatgccattgcaaaaatagcaacattttgt
ccatctcaatacacttcgatgctatcattccaagtcgtcggaagccaattacagccaaac
ttcaccgataaatatgtcaaagtcattagcaagaacattaacagtgccgattgttcgtgc
aacagattcaacgacactaacactgcgaagtttatcatttggatgcctcgttctgcagcg
cccgtcactgatgatgatta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGAACTGCATTAACGGCGTTCCCGT 8 251 4063 Antisense
GGCGTTCCCGTATTATGATGCCATT 562 541 4077 Antisense
ATAGCAACATTTTGTCCATCTCAAT 187 23 4108 Antisense
ATCTCAATACACTTCGATGCTATCA 93 33 4125 Antisense
GATGCTATCATTCCAAGTCGTCGGA 75 413 4140 Antisense
AGTCGTCGGAAGCCAATTACAGCCA 691 21 4155 Antisense
ATTACAGCCAAACTTCACCGATAAA 296 13 4170 Antisense
AACAGTGCCGATTGTTCGTGCAACA 473 137 4222 Antisense
GATTCAACGACACTAACACTGCGAA 138 431 4247 Antisense
ATCATTTGGATGCCTCGTTCTGCAG 207 31 4276 Antisense
CAGCGCCCGTCACTGATGATGATTA 526 203 4298 Antisense
Sequence Source Affymetrix Proprietary Database