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[184820_at]

Description F49H12.4 /REP_DB=WormBase Gene ID /WP=CE20836 /TR=Q9N5S6 /GB=AAF39826.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 20      6grp_high1_10_10 > 23      4grp_highest_8_8 > 55      4grp_high_8_8 > 20      6grp_highest_nonorm > 90      6grp_total > 03      4grp_total > 28      6grp_highest_sub > De      6grp_high1_sub > 02      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 169
1 2 3 4 range
A 147
(1.1)
P 		179.3
(3)
P 		77.4
(-3)
P 		148.6
(1.2)
P 		102
B 135.8
(-1.3)
P 		150.4
(-0.6)
P 		98.1
(-3)
P 		229.3
(3)
P 		131
C 143.3
(0.9)
P 		96.5
(-1.3)
P 		60.2
(-3)
P 		188.7
(3)
P 		129
avr 142
(0.4) 		142.1
(0.5) 		78.6
(-3) 		188.9
(3) 		110

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 152
1 2 3 4 5 6 range
A 139.4
(0.8)
P 		151.3
(1.5)
P 		134.5
(0.5)
P 		165.6
(2.3)
P 		178.6
(3)
P 		70.7
(-3)
P 		108
B 188.5
(2.3)
P 		201.7
(3)
P 		115.8
(-1.3)
P 		122.3
(-1)
P 		105
(-1.9)
P 		82.5
(-3)
P 		119
C 191.1
(2.2)
P 		211.5
(3)
P 		122.8
(-0.5)
P 		191
(2.2)
P 		101.5
(-1.3)
P 		59.3
(-3)
P 		152
avr 173
(2.2) 		188.2
(3) 		124.4
(-0.3) 		159.6
(1.5) 		128.4
(-0.1) 		70.8
(-3) 		117
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 33
1 2 3 4 range
A 53.5
(3)
P 		38.9
(0.4)
P 		20.2
(-3)
P 		21.8
(-2.7)
P 		33
B 43.3
(1.7)
P 		37.1
(0.3)
P 		22.7
(-3)
P 		48.9
(3)
P 		26
C 47.4
(3)
P 		27.7
(-1.5)
P 		21
(-3)
P 		31.8
(-0.5)
P 		26
avr 48.1
(3) 		34.6
(-0) 		21.3
(-3) 		34.2
(-0.1) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 54
1 2 3 4 5 6 range
A 25.7
(-1.6)
P 		53.8
(3)
P 		29.3
(-1)
P 		42
(1.1)
P 		53.9
(3)
P 		17.2
(-3)
P 		37
B 65.6
(2.8)
P 		67.1
(3)
P 		28.1
(-3)
P 		32.4
(-2.3)
P 		42.7
(-0.8)
P 		30.7
(-2.6)
P 		39
C 70.8
(3)
P 		64.5
(2.3)
P 		31.3
(-1.6)
P 		38.4
(-0.8)
P 		32.8
(-1.5)
P 		19.8
(-3)
P 		51
avr 54
(1.8) 		61.8
(3) 		29.6
(-1.9) 		37.6
(-0.7) 		43.1
(0.1) 		22.6
(-3) 		39
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 184820_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18143
Sequence Type Exemplar sequence
Representative Public ID F49H12.4 NCBI
Target Description F49H12.4 /REP_DB=WormBase Gene ID /WP=CE20836 /TR=Q9N5S6 /GB=AAF39826.1 /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_075981(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075981 NCBI Caenorhabditis elegans F49H12.4 (F49H12.4) mRNA, complete cds. 9/11 None
SNAP00000015650 ENSEMBL cdna:SNAP chromosome:CEL140:X:2080350:2081390:1 9/11 None
GENEFINDER00000015657 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:2080350:2081422:1 11/11 None
F49H12.4 ENSEMBL cdna:known chromosome:CEL140:X:2080350:2081420:1 gene:F49H12.4 9/11 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
chrX:2080349-2081422(+) 90.0 100.0
Public Domain and Genome References
Gene Title
Ensembl F49H12.4
Entrez Gene 186082 Entrez gene
SwissProt Q9N5S6 EMBL-EBI
WormBase CE34564 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF39826 Hypothetical protein F49H12.4 [Caenorhabditis elegans] ref|NP_508382.2| F49H12.4 [Caenorhabditis elegans] 2.0E-42
blast AAF39826 Hypothetical protein F49H12.4 [Caenorhabditis elegans] ref|NP_508382.2| F49H12.4 [Caenorhabditis elegans] 3.0E-40
blast CAE68359 Hypothetical protein CBG14098 [Caenorhabditis briggsae] 4.0E-40
blast CAE68359 Hypothetical protein CBG14098 [Caenorhabditis briggsae] 2.0E-39
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_508382.2 1 10-32
F49H12.4 1 10-32
SNAP00000015650 1 10-32
GENEFINDER00000015657 1 10-32
Sequence
Target Sequence 
>C. ELEGANS:184820_AT
gcagacgaatcttctgacgtcttcttcctggtatctgttgttgcgccgcttttattctgc
tgttttgcaatttttgtctgtgctctgaacagtatttggaagacaagaagtaaacttgaa
gctttaacgcaagttgcaaaacaacgcgaaccgacagagtacaccgaattcacaattgac
ctgacaaccaaaatggactcgtgtgtagaactttcttcaccacagatcagttctaaagag
caattgccgttttcggcaaatcaacattttgccggaatccgttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAGACGAATCTTCTGACGTCTTCT 48 313 19 Antisense
TCTTCTTCCTGGTATCTGTTGTTGC 321 617 38 Antisense
TATCTGTTGTTGCGCCGCTTTTATT 319 659 50 Antisense
GCCGCTTTTATTCTGCTGTTTTGCA 416 285 63 Antisense
GCAATTTTTGTCTGTGCTCTGAACA 87 323 85 Antisense
AACGCGAACCGACAGAGTACACCGA 173 69 161 Antisense
GAATTCACAATTGACCTGACAACCA 676 323 184 Antisense
TGGACTCGTGTGTAGAACTTTCTTC 73 547 212 Antisense
ACTTTCTTCACCACAGATCAGTTCT 244 103 228 Antisense
CTAAAGAGCAATTGCCGTTTTCGGC 338 225 251 Antisense
ATCAACATTTTGCCGGAATCCGTTC 182 25 278 Antisense
Sequence Source Affymetrix Proprietary Database