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[175913_s_at]

Description F54A3.5 /REP_DB=WormBase Gene ID /WP=CE25901 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 52      4grp_highest_8_8 > 17      4grp_high_8_8 > 60      6grp_highest_nonorm > 56      6grp_total > 52      4grp_total > 59      6grp_highest_sub > 03      6grp_high1_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1589
1 2 3 4 range
A 2365.5
(0.3)
P 		2809.1
(2)
P 		3082
(3)
P 		1507
(-3)
P 		1575
B 2548.7
(1.1)
P 		2517
(1)
P 		3044.8
(3)
P 		1492.7
(-3)
P 		1552
C 2454.6
(1.2)
P 		2664.6
(2.2)
P 		2835.5
(3)
P 		1584.4
(-3)
P 		1251
avr 2456.3
(0.8) 		2663.6
(1.7) 		2987.4
(3) 		1528
(-3) 		1459

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1300
1 2 3 4 5 6 range
A 1541.9
(-3)
P 		2318.7
(1)
P 		2198
(0.4)
P 		2714.1
(3)
P 		1588.7
(-2.8)
P 		1841.8
(-1.5)
P 		1172
B 1546.8
(-3)
P 		2206.9
(1.7)
P 		2387.2
(3)
P 		2009.9
(0.3)
P 		2256.9
(2.1)
P 		1701.4
(-1.9)
P 		840
C 2842
(3)
P 		2045.6
(-1.1)
P 		2621
(1.9)
P 		1672.2
(-3)
P 		2627.7
(1.9)
P 		2100
(-0.8)
P 		1170
avr 1976.9
(-1.9) 		2190.4
(0.6) 		2402.1
(3) 		2132.1
(-0.1) 		2157.8
(0.2) 		1881.1
(-3) 		521
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 768
1 2 3 4 range
A 861.3
(3)
P 		609.8
(0.6)
P 		805.7
(2.5)
P 		220.6
(-3)
P 		641
B 812.7
(3)
P 		621.6
(0.7)
P 		705.6
(1.7)
P 		318.1
(-3)
P 		495
C 812.6
(1.5)
P 		766.1
(1.2)
P 		988.3
(3)
P 		267.2
(-3)
P 		721
avr 828.9
(3) 		665.8
(1.2) 		833.2
(3) 		268.6
(-3) 		565

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 769
1 2 3 4 5 6 range
A 284.2
(-3)
P 		824.6
(3)
P 		478.7
(-0.8)
P 		688.4
(1.5)
P 		479.4
(-0.8)
P 		448.4
(-1.2)
P 		540
B 538.2
(-2.9)
P 		734.6
(0.2)
P 		579.7
(-2.3)
P 		532.4
(-3)
P 		916.9
(3)
P 		634.5
(-1.4)
P 		385
C 1053.4
(3)
P 		624.2
(-0.6)
P 		667.1
(-0.2)
P 		336.3
(-3)
P 		850.3
(1.3)
P 		703
(0.1)
P 		717
avr 625.3
(-0.2) 		727.8
(2.4) 		575.2
(-1.5) 		519
(-3) 		748.9
(3) 		595.3
(-1) 		230
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175913_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4231
Sequence Type Exemplar sequence
Representative Public ID F54A3.5 NCBI
Target Description F54A3.5 /REP_DB=WormBase Gene ID /WP=CE25901 /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_061815(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061815 NCBI Caenorhabditis elegans F54A3.5 (F54A3.5) mRNA, complete cds. 11/11 None
SNAP00000020155 ENSEMBL cdna:SNAP chromosome:CEL140:II:2224486:2255433:-1 11/11 None
GENEFINDER00000020159 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:2224486:2225707:-1 11/11 None
F54A3.5.2 ENSEMBL cdna:known chromosome:CEL140:II:2224359:2225711:-1 gene:F54A3.5 11/11 None
F54A3.5.1 ENSEMBL cdna:known chromosome:CEL140:II:2224359:2225709:-1 gene:F54A3.5 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:2224484-2225706(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F54A3.5
Entrez Gene 173579 Entrez gene
SwissProt Q9N4K0 EMBL-EBI
WormBase CE25901 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF35959 Hypothetical protein F54A3.6 [Caenorhabditis elegans] ref|NP_494217.1| F54A3.6 [Caenorhabditis elegans] 1.0E-111
blast AAF35960 Hypothetical protein F54A3.5 [Caenorhabditis elegans] ref|NP_494216.1| F54A3.5 [Caenorhabditis elegans] sp|Q9N4K0|U327_CAEEL Hypothetical UPF0327 protein F54A3.5 1.0E-50
blast AAF35960 Hypothetical protein F54A3.5 [Caenorhabditis elegans] ref|NP_494216.1| F54A3.5 [Caenorhabditis elegans] sp|Q9N4K0|U327_CAEEL Hypothetical UPF0327 protein F54A3.5 2.0E-49
blast CAE70466 Hypothetical protein CBG17053 [Caenorhabditis briggsae] 6.0E-47
blast CAE70466 Hypothetical protein CBG17053 [Caenorhabditis briggsae] 9.0E-46
blast AAF35960 Hypothetical protein F54A3.5 [Caenorhabditis elegans] ref|NP_494216.1| F54A3.5 [Caenorhabditis elegans] sp|Q9N4K0|U327_CAEEL Hypothetical UPF0327 protein F54A3.5 5.0E-45
Protein Domains
Database ID Description E-Value
Pfam IPR007512 EMBL-EBI Protein of unknown function DUF543 2.7E-47
Pfam IPR007512 EMBL-EBI Protein of unknown function DUF543 2.7E-47
Pfam IPR007512 EMBL-EBI Protein of unknown function DUF543 3.9E-24
Pfam IPR007512 EMBL-EBI Protein of unknown function DUF543 9.2E-17
Sequence
Target Sequence 
>C. ELEGANS:175913_S_AT
gcttaaagtgactggcggtgtcgctattggaattgtcgccagtgttgcgttttttaagag
ccgctcgtggccaatttggtttggatcaggcgtcggtttgggcaccggatggtcgaattg
ccgtcacgatttcgcttcgccgtacgttttgcacggaaaacgtgttccagctggacagga
ttcgcaaggaaaaccggcatac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTTAAAGTGACTGGCGGTGTCGCT 593 1 99 Antisense
CGGTGTCGCTATTGGAATTGTCGCC 36 245 114 Antisense
CTATTGGAATTGTCGCCAGTGTTGC 2 225 122 Antisense
CCGCTCGTGGCCAATTTGGTTTGGA 357 263 159 Antisense
ATTTGGTTTGGATCAGGCGTCGGTT 466 15 172 Antisense
CGTCGGTTTGGGCACCGGATGGTCG 571 1 189 Antisense
GCACCGGATGGTCGAATTGCCGTCA 708 313 200 Antisense
CGAATTGCCGTCACGATTTCGCTTC 143 255 212 Antisense
GCACGGAAAACGTGTTCCAGCTGGA 470 309 249 Antisense
GTTCCAGCTGGACAGGATTCGCAAG 3 441 262 Antisense
GGATTCGCAAGGAAAACCGGCATAC 568 505 276 Antisense
Sequence Source Affymetrix Proprietary Database