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[174419_s_at]

Description C59211_rc /REP_DB=TREMBL Accession /GB=C59211 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk410c3 : 3prime end, single read.
Cluster 6grp_total > 38      4grp_total > 14      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 334
1 2 3 4 range
A 204.2
(-0.5)
P 		127.4
(-2)
A 		77.1
(-3)
A 		380.6
(3)
P 		304
B 395.6
(3)
P 		72.5
(-2.8)
A 		62.6
(-3)
A 		264.8
(0.6)
P 		333
C 251.9
(0.8)
P 		105.5
(-2.1)
A 		61.9
(-3)
A 		364.3
(3)
P 		302
avr 283.9
(1.8) 		101.8
(-2.2) 		67.2
(-3) 		336.6
(3) 		269

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 175
1 2 3 4 5 6 range
A 153
(3)
A 		152.1
(2.9)
P 		93.7
(-1.8)
A 		78.1
(-3)
A 		149.1
(2.7)
P 		124.7
(0.7)
A 		75
B 174.9
(3)
P 		173
(2.9)
P 		75.4
(-3)
A 		150.7
(1.5)
A 		151.8
(1.6)
A 		133.3
(0.5)
M 		100
C 132.1
(-0.1)
M 		146.8
(0.4)
A 		101.4
(-1.2)
A 		47.4
(-3)
A 		97.8
(-1.3)
A 		222.8
(3)
M 		175
avr 153.3
(2.4) 		157.3
(2.7) 		90.2
(-3) 		92.1
(-2.8) 		132.9
(0.7) 		160.3
(3) 		70
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 112
1 2 3 4 range
A 74.3
(3)
P 		27.7
(-2.2)
A 		20.1
(-3)
A 		55.7
(0.9)
P 		54
B 126.1
(3)
P 		17.9
(-2.8)
A 		14.5
(-3)
A 		56.4
(-0.7)
P 		112
C 83.4
(3)
P 		30.3
(-2.2)
A 		21.6
(-3)
A 		61.4
(0.9)
P 		62
avr 94.6
(3) 		25.3
(-2.5) 		18.7
(-3) 		57.8
(0.1) 		76

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 65
1 2 3 4 5 6 range
A 28.2
(-1.5)
A 		54.1
(3)
P 		20.4
(-2.9)
A 		19.8
(-3)
A 		45
(1.4)
P 		30.4
(-1.1)
A 		34
B 60.9
(2.9)
P 		57.6
(2.4)
P 		18.3
(-3)
A 		39.9
(-0)
A 		61.7
(3)
A 		49.7
(1.3)
M 		43
C 49
(0.6)
M 		44.8
(0.3)
A 		25.8
(-1.5)
A 		9.5
(-3)
A 		31.6
(-1)
A 		74.6
(3)
M 		65
avr 46
(1.8) 		52.2
(3) 		21.5
(-3) 		23.1
(-2.7) 		46.1
(1.8) 		51.6
(2.9) 		31
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174419_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21651
Sequence Type Exemplar sequence
Representative Public ID C59211 NCBI
Target Description C59211_rc /REP_DB=TREMBL Accession /GB=C59211 /CHR=4 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk410c3 : 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 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_067545(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067545 NCBI Caenorhabditis elegans F56A11.4 (F56A11.4) mRNA, complete cds. 11/11 A 
SNAP00000007066 ENSEMBL cdna:SNAP chromosome:CEL140:IV:548302:553186:1 10/11 None
GENEFINDER00000007073 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:548302:553202:1 11/11 None
F56A11.4 ENSEMBL cdna:known chromosome:CEL140:IV:548152:553231:1 gene:F56A11.4 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
chrIV:552085-553221(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F56A11.4
Entrez Gene 176881 Entrez gene
SwissProt O44515 EMBL-EBI
WormBase CE28459 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB92076 Hypothetical protein F56A11.4 [Caenorhabditis elegans] ref|NP_499946.1| F56A11.4 [Caenorhabditis elegans] 0.0
blast AAB92076 Hypothetical protein F56A11.4 [Caenorhabditis elegans] ref|NP_499946.1| F56A11.4 [Caenorhabditis elegans] 1.0E-176
blast CAE58469 Hypothetical protein CBG01609 [Caenorhabditis briggsae] 1.0E-157
blast CAE58469 Hypothetical protein CBG01609 [Caenorhabditis briggsae] 1.0E-155
blast AAB92076 Hypothetical protein F56A11.4 [Caenorhabditis elegans] ref|NP_499946.1| F56A11.4 [Caenorhabditis elegans] 5.0E-78
blast CAE58469 Hypothetical protein CBG01609 [Caenorhabditis briggsae] 2.0E-72
blast CAA87434 Hypothetical protein ZK1307.7 [Caenorhabditis elegans] ref|NP_496074.2| ZK1307.7 [Caenorhabditis elegans] 6.0E-28
blast CAA87434 Hypothetical protein ZK1307.7 [Caenorhabditis elegans] ref|NP_496074.2| ZK1307.7 [Caenorhabditis elegans] 4.0E-25
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499946.1 6 70-92,105-127,147-169,190-209,254-276,363-385
F56A11.4 6 70-92,105-127,147-169,190-209,254-276,363-385
SNAP00000007066 4 20-42,55-77,97-119,222-244
GENEFINDER00000007073 6 20-42,55-77,97-119,140-159,191-213,300-322
Sequence
Target Sequence 
>C. ELEGANS:174419_S_AT
gatgtgttgggcagtttaggtgaaggatggacgtacaaatacctggccgacttgtcttct
gtgctcactatctcatcaactgccttccgactacctgtctatttccattgtaatggagac
attcgcgcacagatacgacactttgcaaaggcttgttttattgagcagaatgagaaaaag
aaattgaaaaaactcacaatgcaccatccaattgtgtcctcctccacggaatctgtccta
tgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGTGTTGGGCAGTTTAGGTGAAG 324 409 15 Antisense
GGATGGACGTACAAATACCTGGCCG 140 511 39 Antisense
TACAAATACCTGGCCGACTTGTCTT 345 643 48 Antisense
TCTTCTGTGCTCACTATCTCATCAA 624 617 69 Antisense
GACTACCTGTCTATTTCCATTGTAA 454 373 103 Antisense
AATGGAGACATTCGCGCACAGATAC 108 163 126 Antisense
TCGCGCACAGATACGACACTTTGCA 354 599 137 Antisense
GACACTTTGCAAAGGCTTGTTTTAT 224 367 151 Antisense
GAAAAAACTCACAATGCACCATCCA 601 355 200 Antisense
CAATGCACCATCCAATTGTGTCCTC 161 183 211 Antisense
TCCTCCACGGAATCTGTCCTATGAA 647 593 234 Antisense
Sequence Source Affymetrix Proprietary Database