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[176596_at]

Description F47F6.2 /REP_DB=WormBase Gene ID /WP=CE10706 /GEN=lin-42 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_total > 05      4grp_total > 26      6grp_cgc > 22      6grp_cgc_sub > De      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 11.3
(0.7)
A 		13.8
(3)
A 		7.2
(-3)
A 		11.2
(0.6)
A 		7
B 14.1
(1.8)
A 		8.4
(-3)
A 		12.6
(0.5)
A 		15.5
(3)
A 		7
C 4.9
(-3)
A 		15.1
(3)
A 		11
(0.6)
A 		11.9
(1.1)
A 		10
avr 10.1
(-3) 		12.4
(1.9) 		10.3
(-2.6) 		12.9
(3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 73
1 2 3 4 5 6 range
A 76.7
(3)
A 		15.4
(-2.2)
A 		8.2
(-2.8)
A 		15.1
(-2.3)
A 		10.8
(-2.6)
A 		6.3
(-3)
A 		70
B 4
(-2.8)
A 		8.3
(-0.3)
A 		12
(1.9)
A 		10.9
(1.3)
A 		13.9
(3)
A 		3.6
(-3)
A 		10
C 10.1
(-2.4)
A 		47.6
(3)
A 		15.4
(-1.6)
A 		13
(-2)
A 		6.8
(-2.8)
A 		5.7
(-3)
A 		42
avr 30.3
(3) 		23.8
(1.4) 		11.9
(-1.4) 		13
(-1.1) 		10.5
(-1.7) 		5.2
(-3) 		25
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3
1 2 3 4 range
A 4.1
(3)
A 		3
(0.4)
A 		1.9
(-2.3)
A 		1.6
(-3)
A 		3
B 4.5
(3)
A 		2.1
(-3)
A 		2.9
(-1)
A 		3.3
(-0)
A 		2
C 1.6
(-3)
A 		4.3
(3)
A 		3.8
(1.9)
A 		2
(-2.1)
A 		3
avr 3.4
(3) 		3.1
(1.4) 		2.9
(0.3) 		2.3
(-3) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13
1 2 3 4 5 6 range
A 14.1
(3)
A 		5.5
(-1.1)
A 		1.8
(-2.9)
A 		3.8
(-1.9)
A 		3.3
(-2.1)
A 		1.5
(-3)
A 		13
B 1.4
(-2.9)
A 		2.8
(-1)
A 		2.9
(-0.8)
A 		2.9
(-0.8)
A 		5.7
(3)
A 		1.3
(-3)
A 		4
C 3.8
(-2.1)
A 		14.5
(3)
A 		3.9
(-2)
A 		2.6
(-2.7)
A 		2.2
(-2.9)
A 		1.9
(-3)
A 		13
avr 6.4
(1.8) 		7.6
(3) 		2.9
(-1.7) 		3.1
(-1.5) 		3.7
(-0.9) 		1.6
(-3) 		6
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176596_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4214
Sequence Type Exemplar sequence
Representative Public ID F47F6.2 NCBI
Target Description F47F6.2 /REP_DB=WormBase Gene ID /WP=CE10706 /GEN=lin-42 /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_001027007(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027007 NCBI Caenorhabditis elegans abnormal cell LINeage family member (lin-42) (lin-42) mRNA, complete cds. 11/11 None
SNAP00000004724 ENSEMBL cdna:SNAP chromosome:CEL140:II:1239046:1242478:-1 9/11 None
GENEFINDER00000004743 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:1234181:1244021:-1 11/11 None
F47F6.1c ENSEMBL cdna:known chromosome:CEL140:II:1239373:1244041:-1 gene:F47F6.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001027006 3/11 Cross Hyb Matching Probes None
F47F6.1b 3/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
173503 3 1 NM_001027007 176596_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:1239527-1244020(-) 100.0 100.0
Public Domain and Genome References
Ensembl F47F6.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
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] 0.0
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-178
blast CAE62985 Hypothetical protein CBG07211 [Caenorhabditis briggsae] 1.0E-146
blast CAE62985 Hypothetical protein CBG07211 [Caenorhabditis briggsae] 1.0E-145
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-144
Sequence
Target Sequence 
>C. ELEGANS:176596_AT
atgccagaccgaatggagcgcctacgtgaatccatggacccgaaaaatggagctagtcgt
cgccagacaccgtatctgctcccttccaatcggagactcggatgtgatctcctcaccacc
accaggcatccagtcaaacaccctgccaccggttatggcgaagactttcgaggatgagct
gagaactattatgaataaggtgagttccgctatctcttcagtaaccttcttatcatccgg
cgacggtgccagtcaccgcttatcttcttcttcagtcctacttgttttgacgctgcactt
ttatctctgcgcctccttgagaagagacacccggctagcacggagaattagacggcgcga
gagtggtcagcagcgccatctctcggagcaaaaagtacacatgctggcactgcggagcat
ggcaccatgccaagagaaagagtgcaagaatgacgctctggcgggaggagcagtgtcagg
taccactgatgagctcatcccc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCCAGACCGAATGGAGCGCCTAC 510 41 750 Antisense
AAATGGAGCTAGTCGTCGCCAGACA 416 119 794 Antisense
ACCCTGCCACCGGTTATGGCGAAGA 649 89 889 Antisense
TAAGGTGAGTTCCGCTATCTCTTCA 467 635 945 Antisense
TCTTCAGTAACCTTCTTATCATCCG 293 617 964 Antisense
GTCCTACTTGTTTTGACGCTGCACT 282 477 1024 Antisense
GCGCCTCCTTGAGAAGAGACACCCG 620 287 1058 Antisense
AGACACCCGGCTAGCACGGAGAATT 261 71 1074 Antisense
GACGGCGCGAGAGTGGTCAGCAGCG 220 377 1100 Antisense
GCGGGAGGAGCAGTGTCAGGTACCA 695 291 1210 Antisense
AGGTACCACTGATGAGCTCATCCCC 614 57 1227 Antisense
Sequence Source Affymetrix Proprietary Database