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[172997_s_at]

Description C58535_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=C58535 /DEF=C.elegans cDNA clone yk367h2 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 24      6grp_high1_10_10 > 31      4grp_highest_8_8 > 16      4grp_high_8_8 > 60      6grp_highest_nonorm > 25      6grp_total > 42      4grp_total > 59      6grp_high1_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6070
1 2 3 4 range
A 4750.1
(0.6)
P 		7157.1
(3)
P 		6137.3
(2)
P 		1092.5
(-3)
P 		6065
B 5116
(1.6)
P 		4967.4
(1.4)
P 		6340.1
(3)
P 		1087.1
(-3)
P 		5253
C 4630.3
(1.1)
P 		5250.2
(1.8)
P 		6227.5
(3)
P 		1132
(-3)
P 		5096
avr 4832.1
(1.4) 		5791.6
(2.5) 		6235
(3) 		1103.9
(-3) 		5131

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5421
1 2 3 4 5 6 range
A 4514.9
(-0.4)
P 		4652.2
(-0.2)
P 		7193.4
(3)
P 		4416.1
(-0.5)
P 		3342
(-1.9)
P 		2457
(-3)
P 		4736
B 4870.4
(-0.9)
P 		5488.2
(-0.1)
P 		7877.7
(3)
P 		4585.6
(-1.3)
P 		3693.3
(-2.5)
P 		3294.8
(-3)
P 		4583
C 4149.8
(-0)
P 		5273.7
(3)
P 		5065.2
(2.4)
P 		4208.7
(0.1)
P 		3036.6
(-3)
P 		3406.7
(-2)
P 		2237
avr 4511.7
(-0.6) 		5138
(0.4) 		6712.1
(3) 		4403.5
(-0.8) 		3357.3
(-2.5) 		3052.8
(-3) 		3659
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2011
1 2 3 4 range
A 1729.5
(3)
P 		1553.6
(2.3)
P 		1604.4
(2.5)
P 		159.9
(-3)
P 		1570
B 1631.5
(3)
P 		1226.8
(1.3)
P 		1469.1
(2.3)
P 		231.7
(-3)
P 		1400
C 1532.7
(1.1)
P 		1509.5
(1)
P 		2170.5
(3)
P 		190.9
(-3)
P 		1980
avr 1631.2
(2.5) 		1430
(1.8) 		1748
(3) 		194.2
(-3) 		1554

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1315
1 2 3 4 5 6 range
A 832.3
(-1.7)
P 		1654.6
(3)
P 		1566.6
(2.5)
P 		1120
(-0)
P 		1008.5
(-0.7)
P 		598.2
(-3)
P 		1056
B 1694.7
(1.1)
P 		1826.8
(2.3)
P 		1912.9
(3)
P 		1214.6
(-3)
P 		1500.5
(-0.5)
P 		1228.6
(-2.9)
P 		698
C 1538.2
(2.4)
P 		1609.2
(3)
P 		1289.2
(0.5)
P 		846.4
(-3)
P 		982.6
(-1.9)
P 		1140.4
(-0.7)
P 		763
avr 1355.1
(0.1) 		1696.9
(3) 		1589.6
(2.1) 		1060.3
(-2.4) 		1163.9
(-1.5) 		989.1
(-3) 		708
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172997_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26613
Sequence Type Exemplar sequence
Representative Public ID C58535 NCBI
Target Description C58535_rc /REP_DB=TREMBL Accession /FEA=EST Transcript /REVCOMP /GB=C58535 /DEF=C.elegans cDNA clone yk367h2 : 3prime end, single read.
Cluster Evidence This cluster is supported by a EST Transcript.
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_066211(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066211 NCBI Caenorhabditis elegans F56C9.7 (F56C9.7) mRNA, complete cds. 11/11 A 
SNAP00000032852 ENSEMBL cdna:SNAP chromosome:CEL140:III:7313131:7314897:-1 11/11 None
GENEFINDER00000032872 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:7313131:7314897:-1 11/11 None
F56C9.7.1 ENSEMBL cdna:known chromosome:CEL140:III:7313065:7314901:-1 gene:F56C9.7 11/11 None
F56C9.7.2 ENSEMBL cdna:known chromosome:CEL140:III:7313131:7314899:-1 gene:F56C9.7 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
chrIII:7313132-7314064(-) 99.67 99.67
Public Domain and Genome References
Gene Title
Ensembl F56C9.7
Entrez Gene 176037 Entrez gene
SwissProt Q20865 EMBL-EBI
WormBase CE01326 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK18962 Hypothetical protein F56C9.7 [Caenorhabditis elegans] ref|NP_498612.1| F56C9.7 [Caenorhabditis elegans] 1.0E-140
blast CAE57622 Hypothetical protein CBG00605 [Caenorhabditis briggsae] 1.0E-115
Protein Domains
Database ID Description E-Value
Pfam IPR009673 EMBL-EBI Protein of unknown function DUF1261 6.2E-66
Sequence
Target Sequence 
>C. ELEGANS:172997_S_AT
agagcaatattgactgcattcgtaaaggagaaaccaccgacggaaaccaatatcgtgcat
gtttgtacaaattcaatgccaccgtaaacgccaatccaaataatttntgtggagccaccg
agacattcatcggatgcatcaaagatttcttcgataccgagtgcaatttgtatgttggat
ggatgcaatgcgagttggaga

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGAGCAATATTGACTGCATTCGTAA 545 69 75 Antisense
GCATTCGTAAAGGAGAAACCACCGA 645 305 90 Antisense
ACCACCGACGGAAACCAATATCGTG 42 85 107 Antisense
GACGGAAACCAATATCGTGCATGTT 266 377 113 Antisense
ATTCAATGCCACCGTAAACGCCAAT 144 3 145 Antisense
TGCCACCGTAAACGCCAATCCAAAT 689 585 151 Antisense
TGTGGAGCCACCGAGACATTCATCG 48 555 182 Antisense
GAGACATTCATCGGATGCATCAAAG 373 393 194 Antisense
AAGATTTCTTCGATACCGAGTGCAA 432 153 216 Antisense
TACCGAGTGCAATTTGTATGTTGGA 309 649 229 Antisense
GGATGGATGCAATGCGAGTTGGAGA 193 515 251 Antisense
Sequence Source Affymetrix Proprietary Database