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[180551_at]

Description F42A9.6 /REP_DB=WormBase Gene ID /WP=CE07228 /TR=Q20314 /GB=AAB03159.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 59      6grp_high1_10_10 > 93      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 96      6grp_total > 84      4grp_total > 02      6grp_highest_sub > In      6grp_high1_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S5      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 630
1 2 3 4 range
A 350
(-2.6)
P 		409.2
(-1.8)
P 		316.9
(-3)
P 		793.4
(3)
P 		477
B 301.1
(-2.4)
P 		247.2
(-2.9)
P 		236.5
(-3)
P 		866.6
(3)
P 		630
C 252.7
(-2.9)
P 		240.2
(-3)
P 		351.5
(-1.7)
P 		741.5
(3)
P 		501
avr 301.3
(-3) 		298.9
(-3) 		301.6
(-3) 		800.5
(3) 		502

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1125
1 2 3 4 5 6 range
A 525.7
(-2.3)
P 		414.5
(-3)
P 		995.8
(0.7)
P 		1067.6
(1.2)
P 		1347
(3)
P 		948.5
(0.4)
P 		933
B 504.2
(-3)
P 		696.8
(-1.8)
P 		497
(-3)
P 		988.5
(-0.1)
P 		1502.6
(3)
P 		1374
(2.2)
P 		1006
C 377.5
(-3)
P 		828.8
(0.9)
P 		511.3
(-1.8)
P 		1067.8
(3)
P 		918.1
(1.7)
P 		1028.5
(2.7)
P 		690
avr 469.1
(-3) 		646.7
(-1.6) 		668
(-1.5) 		1041.3
(1.4) 		1255.9
(3) 		1117
(1.9) 		787
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 130
1 2 3 4 range
A 127.5
(3)
P 		88.8
(-2.2)
P 		82.8
(-3)
P 		116.1
(1.5)
P 		45
B 96
(-1.1)
P 		61.1
(-2.7)
P 		54.8
(-3)
P 		184.7
(3)
P 		130
C 83.6
(-1.4)
P 		69.1
(-3)
P 		122.5
(2.7)
P 		125
(3)
P 		56
avr 102.4
(-0.4) 		73
(-3) 		86.7
(-1.8) 		141.9
(3) 		69

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 514
1 2 3 4 5 6 range
A 96.9
(-3)
P 		147.4
(-2)
P 		216.9
(-0.7)
P 		270.8
(0.4)
P 		406.5
(3)
P 		230.9
(-0.4)
P 		310
B 175.4
(-2.3)
P 		231.9
(-1.6)
P 		120.7
(-3)
P 		261.8
(-1.3)
P 		610.5
(3)
P 		512.3
(1.8)
P 		490
C 139.9
(-2.7)
P 		252.9
(0.4)
P 		130.1
(-3)
P 		214.7
(-0.6)
P 		297.1
(1.7)
P 		344.3
(3)
P 		214
avr 137.4
(-3) 		210.7
(-1.5) 		155.9
(-2.6) 		249.1
(-0.8) 		438
(3) 		362.5
(1.5) 		301
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 180551_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9359
Sequence Type Exemplar sequence
Representative Public ID F42A9.6 NCBI
Target Description F42A9.6 /REP_DB=WormBase Gene ID /WP=CE07228 /TR=Q20314 /GB=AAB03159.1 /SUBMIT=ST.LOUIS /CHR=4 /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_069068(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069068 NCBI Caenorhabditis elegans F42A9.6 (F42A9.6) mRNA, complete cds. 10/11 None
F42A9.6 ENSEMBL cdna:known chromosome:CEL140:IV:8609476:8611472:1 gene:F42A9.6 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000042129 8/11 Cross Hyb Matching Probes None
GENEFINDER00000042144 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:8609541-8611480(+) 99.66 99.67
Public Domain and Genome References
Gene Title
Ensembl F42A9.6
Entrez Gene 185654 Entrez gene
SwissProt Q20314 EMBL-EBI
WormBase CE34859 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAB03159 Hypothetical protein F42A9.6 [Caenorhabditis elegans] ref|NP_501469.2| F42A9.6 [Caenorhabditis elegans] 3.0E-51
blast CAE60004 Hypothetical protein CBG03501 [Caenorhabditis briggsae] 1.0E-34
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501469.2 2 13-35,55-74
F42A9.6 2 13-35,55-74
Sequence
Target Sequence 
>C. ELEGANS:180551_AT
gatacatgctaccattttatctttatgtgctctttacaatattttatcttttgtttttgg
gaggatatttcttctttgtcaatatattttacaaggaattggttaaacaagcacttggtg
atcattccgattccgtttcatttatctggcattttgctgatataatgctcataatgcttc
atgcgtgggcgctcagtgttacctcaaaatgtcgaaaatactttcgatgggtggccgaag
gaggtcagaaagatggggcttttctatttttcaatttttatattgaaggagtacccttca
agcagtttttcgaaaatgttcaaataccgtttgaaaatgagttccaaaagtggattttgc
agatatttattgaattgaaattatttgtgataggaaagcaatttggaagcttttttgaaa
atgtttattatttggaaaaaaatcgaaacatttttaggtggaacttccaaccacaagcac
agctcctcgccacgaatcgaaaccggacattttttgattttaagatctcattattcgttc
gttac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATACATGCTACCATTTTATCTTTA 543 423 35 Antisense
GGGAGGATATTTCTTCTTTGTCAAT 511 495 93 Antisense
AGCACTTGGTGATCATTCCGATTCC 242 69 144 Antisense
TCCGATTCCGTTTCATTTATCTGGC 178 593 160 Antisense
AATGCTCATAATGCTTCATGCGTGG 110 167 198 Antisense
TCATGCGTGGGCGCTCAGTGTTACC 601 619 213 Antisense
GCGCTCAGTGTTACCTCAAAATGTC 489 287 223 Antisense
GATGGGTGGCCGAAGGAGGTCAGAA 106 407 260 Antisense
GGAGTACCCTTCAAGCAGTTTTTCG 21 517 322 Antisense
TCCTCGCCACGAATCGAAACCGGAC 66 593 518 Antisense
TAAGATCTCATTATTCGTTCGTTAC 545 635 555 Antisense
Sequence Source Affymetrix Proprietary Database