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[179896_at]

Description F47F6.1 /REP_DB=WormBase Gene ID /WP=CE10704 /TR=P91314 /GB=AAC71114.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 90      6grp_high1_10_10 > 09      6grp_highest_nonorm > 71      6grp_total > 92      4grp_total > 49      6grp_cgc > 97      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 752
1 2 3 4 range
A 61.2
(-2.6)
A 		676.7
(2.3)
P 		763.4
(3)
P 		15.6
(-3)
A 		748
B 28.2
(-2.8)
A 		528.1
(3)
P 		496.4
(2.6)
P 		11
(-3)
A 		517
C 43.2
(-3)
A 		634.1
(3)
P 		554.8
(2.2)
P 		38.7
(-3)
A 		595
avr 44.2
(-2.8) 		613
(3) 		604.9
(2.9) 		21.8
(-3) 		591

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 412
1 2 3 4 5 6 range
A 311.7
(-0.5)
P 		434.1
(1.9)
P 		216.7
(-2.4)
P 		334.3
(-0.1)
P 		490.8
(3)
P 		185.5
(-3)
P 		305
B 263.7
(0.5)
P 		361.7
(3)
P 		189.1
(-1.4)
P 		270.8
(0.7)
P 		328.8
(2.2)
P 		127.3
(-3)
P 		234
C 428.3
(1.9)
P 		310.9
(0.2)
P 		334.4
(0.5)
P 		292.8
(-0.1)
P 		506
(3)
P 		93.9
(-3)
P 		412
avr 334.6
(0.9) 		368.9
(1.6) 		246.7
(-0.8) 		299.3
(0.2) 		441.9
(3) 		135.6
(-3) 		306
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 197
1 2 3 4 range
A 22.3
(-2.4)
A 		146.9
(1.4)
P 		199.6
(3)
P 		2.3
(-3)
A 		197
B 9
(-2.7)
A 		130.4
(3)
P 		115
(2.3)
P 		2.3
(-3)
A 		128
C 14.3
(-2.7)
A 		182.3
(2.6)
P 		193.4
(3)
P 		6.5
(-3)
A 		187
avr 15.2
(-2.6) 		153.2
(2.4) 		169.3
(3) 		3.7
(-3) 		166

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 132
1 2 3 4 5 6 range
A 57.5
(-2.3)
P 		154.4
(3)
P 		47.2
(-2.9)
P 		84.8
(-0.8)
P 		148.1
(2.7)
P 		45.2
(-3)
P 		109
B 91.7
(0.1)
P 		120.4
(2.1)
P 		45.9
(-3)
P 		71.7
(-1.2)
P 		133.6
(3)
P 		47.5
(-2.9)
P 		88
C 158.8
(2.8)
P 		94.9
(-0.1)
P 		85.1
(-0.6)
P 		58.9
(-1.8)
P 		163.7
(3)
P 		31.4
(-3)
P 		132
avr 102.7
(0.4) 		123.2
(1.6) 		59.4
(-2) 		71.8
(-1.3) 		148.5
(3) 		41.4
(-3) 		107
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179896_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5980
Sequence Type Exemplar sequence
Representative Public ID F47F6.1 NCBI
Target Description F47F6.1 /REP_DB=WormBase Gene ID /WP=CE10704 /TR=P91314 /GB=AAC71114.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_001027006, NM_001027005
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
F47F6.1a ENSEMBL cdna:known chromosome:CEL140:II:1233250:1236546:-1 gene:F47F6.1 11/11 None
F47F6.1b ENSEMBL cdna:known chromosome:CEL140:II:1233250:1244021:-1 gene:F47F6.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001027006 5/11 Cross Hyb Matching Probes None
NM_001027005 5/11 Cross Hyb Matching Probes None
SNAP00000004723 5/11 Cross Hyb Matching Probes None
GENEFINDER00000004743 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:1232640-1236487(-) 93.81 100.0
Public Domain and Genome References
Ensembl F47F6.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAU05570 Abnormal cell lineage protein 42, isoform b [Caenorhabditis elegans] ref|NP_001022177.1| abnormal cell LINeage family member (lin-42) [Caenorhabditis elegans] 0.0
blast AAC71113 Abnormal cell lineage protein 42, isoform c [Caenorhabditis elegans] ref|NP_001022178.1| abnormal cell LINeage family member (lin-42) [Caenorhabditis elegans] gb|AAF13188.1| LIN-42 [Caenorhabditis elegans] 1.0E-178
blast CAE62985 Hypothetical protein CBG07211 [Caenorhabditis briggsae] 1.0E-144
blast AAL02517 Abnormal cell lineage protein 42, isoform a [Caenorhabditis elegans] ref|NP_001022176.1| abnormal cell LINeage family member (lin-42) [Caenorhabditis elegans] 1.0E-112
blast AAU05570 Abnormal cell lineage protein 42, isoform b [Caenorhabditis elegans] ref|NP_001022177.1| abnormal cell LINeage family member (lin-42) [Caenorhabditis elegans] 1.0E-105
blast CAE62986 Hypothetical protein CBG07212 [Caenorhabditis briggsae] 2.0E-87
Sequence
Target Sequence 
>C. ELEGANS:179896_AT
caccactcagctacacacagattaactgtctggagaatgtgcacaggttgttgaagtctc
agagtaggccggaaagcccagcgaaacaagatgagccgttcgatgagaagaagtacccac
cgcagacgccactgacccgagaagcactgacactgcacaccaagcgatttgaagacgagt
acaaggacacttggtgcaggatttttcaattttttccaattttttttctaaaaaaaagct
caaaaatcccaaatttccaagtgcacccgaaagctcccagtgcatgggaatttcacattt
atagccgcccccacactccccacccacccaaaaatcttccaattgtgcaatttgaaccac
tcaatttcctgccttttctcccgcgaaatttcaccccccaatttatagattctcaatttt
tttttgtgtttttttcacatttttactctttttttttttgggtttttgacacctacaaca
t

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CACCACTCAGCTACACACAGATTAA 177 203 311 Antisense
GAGTAGGCCGGAAAGCCCAGCGAAA 152 399 372 Antisense
CGATGAGAAGAAGTACCCACCGCAG 474 249 411 Antisense
GACCCGAGAAGCACTGACACTGCAC 607 381 444 Antisense
GACACTGCACACCAAGCGATTTGAA 370 367 459 Antisense
AATTTCCAAGTGCACCCGAAAGCTC 105 155 562 Antisense
TGGGAATTTCACATTTATAGCCGCC 586 551 595 Antisense
CACCCACCCAAAAATCTTCCAATTG 144 199 631 Antisense
ATTTGAACCACTCAATTTCCTGCCT 273 17 660 Antisense
TTCACCCCCCAATTTATAGATTCTC 396 687 700 Antisense
TTTGGGTTTTTGACACCTACAACAT 210 665 767 Antisense
Sequence Source Affymetrix Proprietary Database