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[172428_x_at]

Description F08F1.9 /REP_DB=WormBase Gene ID /WP=CE09256 /TR=O17384 /GB=AAB71309.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_total > 47      4grp_total > 19      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 142
1 2 3 4 range
A 102.9
(-1)
P 		71.8
(-3)
A 		78.1
(-2.6)
A 		166
(3)
P 		94
B 36.8
(-3)
A 		127
(3)
M 		49.8
(-2.1)
A 		102.2
(1.4)
P 		90
C 110
(0.4)
A 		119.7
(0.8)
A 		29.2
(-3)
A 		171
(3)
P 		142
avr 83.2
(-1) 		106.2
(0.4) 		52.4
(-3) 		146.4
(3) 		94

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 99
1 2 3 4 5 6 range
A 101
(1.6)
A 		75.8
(-1.5)
A 		95.4
(0.9)
P 		97.7
(1.2)
A 		63.2
(-3)
A 		112.7
(3)
P 		50
B 144.3
(3)
M 		91.8
(-2.7)
A 		89.3
(-3)
P 		112
(-0.5)
P 		106.6
(-1.1)
P 		107.4
(-1)
P 		55
C 77.9
(-0.6)
A 		98.8
(0.9)
P 		65.5
(-1.5)
A 		45.4
(-3)
P 		68.8
(-1.3)
M 		127.7
(3)
P 		82
avr 107.7
(1.6) 		88.8
(-1.5) 		83.4
(-2.4) 		85
(-2.1) 		79.5
(-3) 		115.9
(3) 		36
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 37.5
(3)
P 		15.6
(-3)
A 		20.4
(-1.7)
A 		24.3
(-0.6)
P 		22
B 11.7
(-2.9)
A 		31.4
(3)
M 		11.5
(-3)
A 		21.8
(0.1)
P 		20
C 36.4
(3)
A 		34.4
(2.5)
A 		10.2
(-3)
A 		28.8
(1.3)
P 		26
avr 28.5
(3) 		27.1
(2.4) 		14
(-3) 		25
(1.6) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 41
1 2 3 4 5 6 range
A 18.6
(-3)
A 		26.9
(2.7)
A 		20.8
(-1.5)
P 		24.8
(1.2)
A 		19.1
(-2.7)
A 		27.4
(3)
P 		9
B 50.2
(3)
M 		30.6
(-1.1)
A 		21.7
(-3)
P 		29.7
(-1.3)
P 		43.3
(1.5)
P 		40
(0.9)
P 		29
C 28.9
(0.5)
A 		30.1
(0.7)
P 		16.7
(-1.6)
A 		9.1
(-3)
P 		22.3
(-0.6)
M 		42.8
(3)
P 		34
avr 32.6
(1.6) 		29.2
(0.4) 		19.7
(-3) 		21.2
(-2.5) 		28.2
(-0) 		36.7
(3) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172428_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17102
Sequence Type Exemplar sequence
Representative Public ID F08F1.9 NCBI
Target Description F08F1.9 /REP_DB=WormBase Gene ID /WP=CE09256 /TR=O17384 /GB=AAB71309.1 /SUBMIT=ST.LOUIS /CHR=X /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_077024(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077024 NCBI Caenorhabditis elegans F08F1.9 (F08F1.9) mRNA, complete cds. 11/11 None
GENEFINDER00000012400 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:8409797:8412719:-1 9/11 None
SNAP00000012383 ENSEMBL cdna:SNAP chromosome:CEL140:X:8409905:8410431:-1 11/11 None
F08F1.9 ENSEMBL cdna:known chromosome:CEL140:X:8409905:8410431:-1 gene:F08F1.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_061753 8/11 Cross Hyb Matching Probes None
NM_066279 1/11 Cross Hyb Matching Probes A 
SNAP00000008674 1/11 Cross Hyb Matching Probes None
GENEFINDER00000002437 7/11 Cross Hyb Matching Probes None
GENEFINDER00000029924 1/11 Cross Hyb Matching Probes None
SNAP00000029922 1/11 Cross Hyb Matching Probes None
SNAP00000017785 1/11 Cross Hyb Matching Probes None
SNAP00000016557 1/11 Cross Hyb Matching Probes None
F27D4.3 1/11 Cross Hyb Matching Probes None
ZK1225.7 2/11 Cross Hyb Matching Probes None
F59H6.7 8/11 Cross Hyb Matching Probes A 
C03B8.2 1/11 Cross Hyb Matching Probes A 
W02F12.1 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:8409903-8410430(-) 100.0 100.0
chrII:2019064-2023302(-) 98.47 98.47
Public Domain and Genome References
Gene Title
Ensembl F08F1.9
Entrez Gene 184192 Entrez gene
SwissProt O17384 EMBL-EBI
WormBase CE09256 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB71309 Hypothetical protein F08F1.9 [Caenorhabditis elegans] ref|NP_509425.1| F08F1.9 [Caenorhabditis elegans] 1.0E-70
blast AAP68938 Cyclin a protein 2 [Caenorhabditis elegans] ref|NP_494154.1| CYclin A family member (cya-2) [Caenorhabditis elegans] 1.0E-51
blast AAB71309 Hypothetical protein F08F1.9 [Caenorhabditis elegans] ref|NP_509425.1| F08F1.9 [Caenorhabditis elegans] 2.0E-49
blast AAP68938 Cyclin a protein 2 [Caenorhabditis elegans] ref|NP_494154.1| CYclin A family member (cya-2) [Caenorhabditis elegans] 2.0E-45
blast AAC71146 Hypothetical protein W05G11.2 [Caenorhabditis elegans] ref|NP_497132.1| W05G11.2 [Caenorhabditis elegans] 8.0E-33
blast CAA82372 Hypothetical protein ZK507.6 [Caenorhabditis elegans] ref|NP_499018.1| ZK507.6 [Caenorhabditis elegans] sp|P34638|CCNA1_CAEEL G2/mitotic-specific cyclin A1 gb|AAA84393.1| cyclin A 6.0E-23
Protein Domains
Database ID Description E-Value
Pfam IPR006671 EMBL-EBI Cyclin, N-terminal domain 3.6E-17
Pfam IPR006671 EMBL-EBI Cyclin, N-terminal domain 1.8E-11
Sequence
Target Sequence 
>C. ELEGANS:172428_X_AT
tcgattggttcagcgatgccgtgagagagtacattttccgaaatgaagcagttcatctcg
cggtgagcctcgtggatcgtgctcttccaatgttcaacattaataaaatgcgatttcaac
tggttggaatcacgtcgatgaggatcgcagtaaaatacgaggaaatctttccacctatcc
tatcgaatacccgacattcttttgatggagcgattctttattggaaagttcgacttcatc
gtcgcaatgcccacaccatcttggatcggatcatgctttgcacagagaatgaactttaca
aaaaagatgcggaatgctgtcaaactcctcga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCGATTGGTTCAGCGATGCCGTGAG 628 603 29 Antisense
GCCGTGAGAGAGTACATTTTCCGAA 327 283 46 Antisense
AATGAAGCAGTTCATCTCGCGGTGA 335 165 70 Antisense
ATCGTGCTCTTCCAATGTTCAACAT 589 35 104 Antisense
TCAACTGGTTGGAATCACGTCGATG 448 631 144 Antisense
TTTCCACCTATCCTATCGAATACCC 25 669 196 Antisense
ATACCCGACATTCTTTTGATGGAGC 325 23 215 Antisense
GTTCGACTTCATCGTCGCAATGCCC 85 443 256 Antisense
CCCACACCATCTTGGATCGGATCAT 261 259 278 Antisense
TTGGATCGGATCATGCTTTGCACAG 432 709 289 Antisense
TGCGGAATGCTGTCAAACTCCTCGA 218 581 336 Antisense
Sequence Source Affymetrix Proprietary Database