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[183971_at]

Description C18A3.4 /REP_DB=WormBase Gene ID /WP=CE01796 /TR=Q18071 /GB=AAA68368.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 54      6grp_high1_10_10 > 34      4grp_highest_8_8 > 01      4grp_high_8_8 > 45      6grp_highest_nonorm > 75      6grp_total > 01      4grp_total > 50      6grp_high1_sub > 02      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 527
1 2 3 4 range
A 907.7
(-0.7)
P 		1060
(3)
P 		1031
(2.3)
P 		813.3
(-3)
P 		247
B 878.1
(-2.9)
P 		1340.2
(3)
P 		1110.5
(0.1)
P 		867
(-3)
P 		473
C 925.4
(-2.1)
P 		1196.1
(3)
P 		1053.5
(0.3)
P 		878.6
(-3)
P 		318
avr 903.7
(-2.1) 		1198.8
(3) 		1065
(0.7) 		853
(-3) 		346

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 443
1 2 3 4 5 6 range
A 1033.9
(0.6)
P 		1197.8
(3)
P 		785
(-3)
P 		879.7
(-1.6)
P 		943.4
(-0.7)
P 		894
(-1.4)
P 		413
B 807.2
(-3)
P 		1056.3
(3)
P 		845.9
(-2.1)
P 		861.2
(-1.7)
P 		940.5
(0.2)
P 		942.6
(0.3)
P 		249
C 849.8
(-1.5)
P 		1134.4
(3)
P 		871.9
(-1.2)
P 		940.1
(-0.1)
P 		755
(-3)
P 		988
(0.7)
P 		379
avr 897
(-1.7) 		1129.5
(3) 		834.3
(-3) 		893.7
(-1.8) 		879.6
(-2.1) 		941.5
(-0.8) 		295
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 248
1 2 3 4 range
A 330.5
(3)
P 		230.1
(0.2)
P 		269.5
(1.3)
P 		119
(-3)
P 		212
B 280
(0.9)
P 		331
(3)
P 		257.3
(-0)
P 		184.8
(-3)
P 		146
C 306.3
(1.3)
P 		343.9
(2.4)
P 		367.2
(3)
P 		148.1
(-3)
P 		219
avr 305.6
(3) 		301.7
(2.8) 		298
(2.7) 		150.6
(-3) 		155

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 255
1 2 3 4 5 6 range
A 190.6
(-2.5)
P 		426
(3)
P 		171
(-3)
P 		223.1
(-1.8)
P 		284.7
(-0.3)
P 		217.7
(-1.9)
P 		255
B 280.9
(-0.4)
P 		351.6
(2)
P 		205.4
(-3)
P 		228.1
(-2.2)
P 		382.1
(3)
P 		351.5
(2)
P 		177
C 315
(1.8)
P 		346.1
(3)
P 		221.9
(-1.7)
P 		189.1
(-3)
P 		244.3
(-0.9)
P 		330.8
(2.4)
P 		157
avr 262.2
(-0.8) 		374.6
(3) 		199.4
(-3) 		213.4
(-2.5) 		303.7
(0.6) 		300
(0.4) 		175
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183971_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5701
Sequence Type Exemplar sequence
Representative Public ID C18A3.4 NCBI
Target Description C18A3.4 /REP_DB=WormBase Gene ID /WP=CE01796 /TR=Q18071 /GB=AAA68368.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=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_062718(11), NM_171004(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062718 NCBI Caenorhabditis elegans C18A3.4b (C18A3.4) mRNA, complete cds. 11/11 None
NM_171004 NCBI Caenorhabditis elegans C18A3.4a (C18A3.4) mRNA, complete cds. 11/11 None
SNAP00000023262 ENSEMBL cdna:SNAP chromosome:CEL140:II:5710090:5712070:1 11/11 None
GENEFINDER00000023273 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:5710090:5712070:1 11/11 None
C18A3.4b.1 ENSEMBL cdna:known chromosome:CEL140:II:5707658:5712290:1 gene:C18A3.4 11/11 None
C18A3.4b.2 ENSEMBL cdna:known chromosome:CEL140:II:5710019:5712290:1 gene:C18A3.4 11/11 None
C18A3.4a ENSEMBL cdna:known chromosome:CEL140:II:5710090:5712301:1 gene:C18A3.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_182216 3/11 Cross Hyb Matching Probes None
C18A3.4c 3/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
173966 3 2 NM_062718 183971_at (11)
NM_171004 183971_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:5710086-5712067(+) 100.0 100.0
Public Domain and Genome References
Ensembl C18A3.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAL08028 Hypothetical protein C18A3.4b [Caenorhabditis elegans] ref|NP_495119.1| C18A3.4b [Caenorhabditis elegans] 1.0E-166
blast AAA68368 Hypothetical protein C18A3.4a [Caenorhabditis elegans] ref|NP_741003.1| C18A3.4a [Caenorhabditis elegans] 1.0E-166
blast CAE59175 Hypothetical protein CBG02483 [Caenorhabditis briggsae] 1.0E-157
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495119.1 6 43-65,78-100,110-132,173-195,210-232,245-264
NP_741003.1 7 43-65,78-100,110-132,173-195,210-232,245-264,286-308
C18A3.4b.1 6 43-65,78-100,110-132,173-195,210-232,245-264
C18A3.4b.2 6 43-65,78-100,110-132,173-195,210-232,245-264
C18A3.4a 7 43-65,78-100,110-132,173-195,210-232,245-264,286-308
SNAP00000023262 7 43-65,78-100,110-132,173-195,210-232,245-264,286-308
GENEFINDER00000023273 7 43-65,78-100,110-132,173-195,210-232,245-264,286-308
Sequence
Target Sequence 
>C. ELEGANS:183971_AT
agcaacacctccattctgttgcctatttccatgtcttccaaaagtccgactggaaggaaa
aaagataagatggtgtgagctgatggtaatgcaagcgccgatcgttcgcttatttgccac
acttgtctcgcttgtaatctactttgaatatcaagatcagggccttgtcccactaaaagt
gctcgactttatcacacttccatctcttttggcaggaatctacggaactcacatattagt
cacaacggtttctcggatggatgaattaatctcgtacagatatgttgttgtattccgtct
tcttgatttcttcttcatggtgttcggattgcaacaaccagtttttgattttctcgcgag
atatggagcatttggatgtggtactgtacttccagcaattgagacttctttctactggaa
gaacttcttcacagtaattgaagcattctgtgtcacattaatcagcactgtacttctaca
accatcaaaatcatcattctttgacaaacatccaagctgccgatcgatgagctctgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCAACACCTCCATTCTGTTGCCTA 266 77 459 Antisense
GGTAATGCAAGCGCCGATCGTTCGC 226 497 543 Antisense
CACTTGTCTCGCTTGTAATCTACTT 282 197 578 Antisense
AGGGCCTTGTCCCACTAAAAGTGCT 631 1 617 Antisense
AGTGCTCGACTTTATCACACTTCCA 244 61 636 Antisense
ACACTTCCATCTCTTTTGGCAGGAA 33 111 652 Antisense
GTCACAACGGTTTCTCGGATGGATG 411 465 697 Antisense
GATATGTTGTTGTATTCCGTCTTCT 658 425 737 Antisense
GATTTCTTCTTCATGGTGTTCGGAT 609 427 763 Antisense
TCAGCACTGTACTTCTACAACCATC 134 625 920 Antisense
CAAGCTGCCGATCGATGAGCTCTGC 81 185 971 Antisense
Sequence Source Affymetrix Proprietary Database