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[175400_s_at]

Description AU116586_rc /REP_DB=TREMBL Accession /GB=AU116586 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk746d8 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 15      6grp_high1_10_10 > 20      4grp_highest_8_8 > 32      4grp_high_8_8 > 51      6grp_highest_nonorm > 75      6grp_total > 50      4grp_total > 52      6grp_highest_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 647
1 2 3 4 range
A 1162.1
(3)
P 		1104.6
(2.5)
P 		913.5
(0.7)
P 		515.5
(-3)
P 		647
B 1047.2
(2.7)
P 		964.6
(1.7)
P 		1072.7
(3)
P 		570.8
(-3)
P 		502
C 1073.1
(3)
P 		1059.2
(2.8)
P 		921.7
(0.9)
P 		638.3
(-3)
P 		435
avr 1094.1
(3) 		1042.8
(2.4) 		969.3
(1.6) 		574.9
(-3) 		519

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 551
1 2 3 4 5 6 range
A 842.4
(-0.8)
P 		965.9
(0.8)
P 		982.5
(1)
P 		1132.5
(3)
P 		674.5
(-3)
P 		847.7
(-0.7)
P 		458
B 902.8
(-1.1)
P 		829.3
(-2)
P 		1225.4
(3)
P 		817.7
(-2.2)
P 		751.6
(-3)
P 		797.9
(-2.4)
P 		474
C 1166.6
(3)
P 		833.2
(-3)
P 		929.2
(-1.3)
P 		1158.2
(2.8)
P 		833.8
(-3)
P 		871
(-2.3)
P 		333
avr 970.6
(1.5) 		876.1
(-0.5) 		1045.7
(3) 		1036.1
(2.8) 		753.3
(-3) 		838.9
(-1.2) 		292
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 348
1 2 3 4 range
A 423.1
(3)
P 		239.8
(-0.2)
P 		238.8
(-0.2)
P 		75.5
(-3)
P 		348
B 333.9
(3)
P 		238.2
(0.3)
P 		248.6
(0.6)
P 		121.6
(-3)
P 		212
C 355.2
(3)
P 		304.5
(1.8)
P 		321.2
(2.2)
P 		107.6
(-3)
P 		248
avr 370.7
(3) 		260.8
(0.5) 		269.5
(0.7) 		101.6
(-3) 		269

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 277
1 2 3 4 5 6 range
A 155.3
(-3)
P 		343.5
(3)
P 		214
(-1.1)
P 		287.2
(1.2)
P 		203.5
(-1.5)
P 		206.4
(-1.4)
P 		188
B 314.1
(3)
P 		276
(0.7)
P 		297.6
(2)
P 		216.6
(-3)
P 		305.4
(2.5)
P 		297.5
(2)
P 		98
C 432.4
(3)
P 		254.2
(-2.4)
P 		236.5
(-2.9)
P 		232.9
(-3)
P 		269.8
(-1.9)
P 		291.6
(-1.2)
P 		200
avr 300.6
(3) 		291.2
(2) 		249.4
(-2.6) 		245.6
(-3) 		259.6
(-1.5) 		265.2
(-0.9) 		55
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175400_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20215
Sequence Type Exemplar sequence
Representative Public ID AU116586 NCBI
Target Description AU116586_rc /REP_DB=TREMBL Accession /GB=AU116586 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk746d8 : 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 Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_001026252
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
F28B3.6a ENSEMBL cdna:known chromosome:CEL140:I:4950664:4951470:-1 gene:F28B3.6 11/11 None
F28B3.6b ENSEMBL cdna:known chromosome:CEL140:I:4950744:4951482:-1 gene:F28B3.6 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001026252 8/11 Cross Hyb Matching Probes None
SNAP00000020909 8/11 Cross Hyb Matching Probes None
GENEFINDER00000020912 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:4950656-4950936(-) 100.0 100.0
Public Domain and Genome References
Ensembl F28B3.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast T34062 hypothetical protein F28B3.6 - Caenorhabditis elegans 3.0E-81
blast AAO38652 Hypothetical protein F28B3.6 [Caenorhabditis elegans] ref|NP_001021423.1| F28B3.6 [Caenorhabditis elegans] 3.0E-73
blast AAO38652 Hypothetical protein F28B3.6 [Caenorhabditis elegans] ref|NP_001021423.1| F28B3.6 [Caenorhabditis elegans] 4.0E-72
blast T34062 hypothetical protein F28B3.6 - Caenorhabditis elegans 3.0E-69
blast CAE73106 Hypothetical protein CBG20486 [Caenorhabditis briggsae] 5.0E-67
blast CAE73106 Hypothetical protein CBG20486 [Caenorhabditis briggsae] 1.0E-65
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
F28B3.6a 3 50-72,82-104,155-177
F28B3.6b 2 50-72,82-104
Sequence
Target Sequence 
>C. ELEGANS:175400_S_AT
caaacccagctttggcaggatcacattgcaatcgcatcagcagccgtcggatacatgtca
agtggtcaactcggtctcgtcgttggtctcgatctttctctactttttgcagtaattact
aggaatttgtagagaaaatcgttttttttattattttctttctatttttttgctttcgaa
cagatttttatgtgtattaattttctagtcactata

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAACCCAGCTTTGGCAGGATCACA 292 191 13 Antisense
ACCCAGCTTTGGCAGGATCACATTG 566 89 16 Antisense
GGCAGGATCACATTGCAATCGCATC 310 535 26 Antisense
ACATTGCAATCGCATCAGCAGCCGT 95 105 35 Antisense
TCGCATCAGCAGCCGTCGGATACAT 517 597 44 Antisense
AGCAGCCGTCGGATACATGTCAAGT 547 73 51 Antisense
GCCGTCGGATACATGTCAAGTGGTC 592 283 55 Antisense
CATGTCAAGTGGTCAACTCGGTCTC 478 207 66 Antisense
TTCTATTTTTTTGCTTTCGAACAGA 444 683 172 Antisense
TTTTGCTTTCGAACAGATTTTTATG 340 675 180 Antisense
GTGTATTAATTTTCTAGTCACTATA 110 487 204 Antisense
Sequence Source Affymetrix Proprietary Database