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[178645_at]

Description F54C9.7 /REP_DB=WormBase Gene ID /WP=CE02257 /TR=Q20756 /GB=CAA90253.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 22      6grp_high1_10_10 > 02      4grp_highest_8_8 > 39      4grp_high_8_8 > 03      6grp_highest_nonorm > 51      6grp_total > 35      4grp_total > 05      6grp_highest_sub > De      6grp_high1_sub > De      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 944
1 2 3 4 range
A 607.7
(-0)
P 		244.4
(-3)
P 		246.1
(-3)
P 		971.1
(3)
P 		727
B 552
(-0.8)
P 		267.5
(-2.6)
P 		206.7
(-3)
P 		1151
(3)
P 		944
C 579.1
(-0.7)
P 		309.2
(-2.7)
P 		275.4
(-3)
P 		1058
(3)
P 		783
avr 579.6
(-0.5) 		273.7
(-2.8) 		242.7
(-3) 		1060
(3) 		817

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 394
1 2 3 4 5 6 range
A 525.6
(1.2)
P 		636.7
(3)
P 		510.2
(1)
P 		580
(2.1)
P 		263.3
(-3)
P 		574.8
(2)
P 		373
B 657.5
(3)
P 		600.8
(2)
P 		520.3
(0.6)
P 		438.3
(-0.8)
P 		308.8
(-3)
P 		419.3
(-1.1)
P 		349
C 591.6
(3)
P 		521
(1.4)
P 		541.4
(1.8)
P 		464.1
(0.1)
P 		330.1
(-3)
P 		412.1
(-1.1)
P 		262
avr 591.6
(3) 		586.2
(2.9) 		524
(1.6) 		494.1
(1) 		300.7
(-3) 		468.7
(0.5) 		291
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 197
1 2 3 4 range
A 221.3
(3)
P 		53.1
(-3)
P 		64.3
(-2.6)
P 		142.2
(0.2)
P 		168
B 176
(0.9)
P 		66.1
(-2.4)
P 		47.9
(-3)
P 		245.3
(3)
P 		197
C 191.7
(3)
P 		88.9
(-3)
P 		96
(-2.6)
P 		178.4
(2.2)
P 		103
avr 196.3
(3) 		69.4
(-3) 		69.4
(-3) 		188.6
(2.6) 		127

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 149
1 2 3 4 5 6 range
A 96.9
(-2.3)
P 		226.4
(3)
P 		111.1
(-1.7)
P 		147.1
(-0.2)
P 		79.5
(-3)
P 		140
(-0.5)
P 		147
B 228.8
(3)
P 		200
(1.5)
P 		126.4
(-2.5)
P 		116.1
(-3)
P 		125.4
(-2.5)
P 		156.3
(-0.9)
P 		113
C 219.3
(3)
P 		159
(0.1)
P 		137.8
(-0.9)
P 		93.3
(-3)
P 		106.8
(-2.4)
P 		138
(-0.9)
P 		126
avr 181.7
(2.1) 		195.1
(3) 		125.1
(-1.6) 		118.8
(-2) 		103.9
(-3) 		144.8
(-0.3) 		91
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 178645_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3873
Sequence Type Exemplar sequence
Representative Public ID F54C9.7 NCBI
Target Description F54C9.7 /REP_DB=WormBase Gene ID /WP=CE02257 /TR=Q20756 /GB=CAA90253.1 /SUBMIT=HINXTON /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_063412(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063412 NCBI Caenorhabditis elegans F54C9.7 (F54C9.7) mRNA, complete cds. 11/11 None
SNAP00000013423 ENSEMBL cdna:SNAP chromosome:CEL140:II:8573277:8574918:1 11/11 None
GENEFINDER00000013446 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8573277:8574918:1 11/11 None
F54C9.7 ENSEMBL cdna:known chromosome:CEL140:II:8573277:8574918:1 gene:F54C9.7 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:8573273-8574915(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F54C9.7
Entrez Gene 186225 Entrez gene
SwissProt Q20756 EMBL-EBI
WormBase CE02257 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA90253 Hypothetical protein F54C9.7 [Caenorhabditis elegans] ref|NP_495813.1| F54C9.7 [Caenorhabditis elegans] 0.0
blast CAE57580 Hypothetical protein CBG00559 [Caenorhabditis briggsae] 1.0E-138
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495813.1 2 5-22,268-287
F54C9.7 2 5-22,268-287
SNAP00000013423 2 5-22,268-287
GENEFINDER00000013446 2 5-22,268-287
Sequence
Target Sequence 
>C. ELEGANS:178645_AT
tgggcatcggatttcaagtgaggcactggaatatgatgatcttataagtactgttgcatt
gcgaaaaagtcatttctttatggatccaagtagcaaattgagattccccaatttaaacgt
atatgagactgatagtagagccatgcagttgattatgatggaaatgctaaaaaaagttcg
tcaagaaatcacaagtatggccccacggcgttttgatggagtatcaagcattgactatat
tggccctcgtcttgtcgaaaatggaccaaatggtccagttattaaggatattactgaatt
ggaatatcgtccaaaggatgtactcttttacaaaggaatggtgttcaagattgaagatct
ttttgataattatgaagaatatcaagatcatcgaacaatgttcatgtatttttcgctcat
cgtattgggatttgtcatgatttgtggatgtttcaagttgagaaatcactatgcagccac
tgaggccgcacgtctccgtcgtgtcactcatcaagatggaagtgatgattggactaaacg
gattccaactaccggagaagctccaccatactattctcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGGGCATCGGATTTCAAGTGAGGCA 95 553 420 Antisense
AAGTCATTTCTTTATGGATCCAAGT 626 155 486 Antisense
GAGATTCCCCAATTTAAACGTATAT 481 395 519 Antisense
AAGAAATCACAAGTATGGCCCCACG 469 153 602 Antisense
GCCCCACGGCGTTTTGATGGAGTAT 143 283 619 Antisense
AAGCATTGACTATATTGGCCCTCGT 149 151 645 Antisense
GTATTTTTCGCTCATCGTATTGGGA 588 445 825 Antisense
TCACTATGCAGCCACTGAGGCCGCA 497 625 885 Antisense
CCGTCGTGTCACTCATCAAGATGGA 243 265 915 Antisense
GGATTCCAACTACCGGAGAAGCTCC 707 507 959 Antisense
GAGAAGCTCCACCATACTATTCTCC 51 393 974 Antisense
Sequence Source Affymetrix Proprietary Database