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[186104_at]

Description VF39H2L.1 /REP_DB=WormBase Gene ID /WP=CE18300 /TR=O62387 /GB=CAB10725.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 86      6grp_high1_10_10 > 77      4grp_highest_8_8 > 38      4grp_high_8_8 > 02      6grp_highest_nonorm > 81      6grp_total > 69      4grp_total > 14      6grp_highest_sub > Da      6grp_high1_sub > Da      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 89
1 2 3 4 range
A 226.8
(1.8)
P 		155.9
(-3)
P 		166.3
(-2.3)
P 		244.4
(3)
P 		89
B 173
(-1.5)
P 		166.4
(-2.1)
P 		156.6
(-3)
P 		221.4
(3)
P 		65
C 222
(1.8)
P 		156.3
(-3)
P 		174.7
(-1.6)
P 		237.6
(3)
P 		81
avr 207.3
(0.8) 		159.5
(-3) 		165.9
(-2.5) 		234.5
(3) 		75

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 226
1 2 3 4 5 6 range
A 209.3
(-2.4)
P 		197.7
(-3)
P 		268.1
(0.4)
P 		226.2
(-1.6)
P 		277.9
(0.9)
P 		322.6
(3)
P 		125
B 275.1
(-0.7)
P 		241
(-1.8)
P 		204.3
(-3)
P 		214.8
(-2.7)
P 		274.7
(-0.7)
P 		386.5
(3)
P 		182
C 282.2
(-0.6)
P 		308.8
(0.1)
P 		192.5
(-3)
P 		262.5
(-1.1)
P 		261.8
(-1.2)
P 		418.2
(3)
P 		226
avr 255.5
(-1.7) 		249.2
(-1.9) 		221.6
(-3) 		234.5
(-2.5) 		271.5
(-1.1) 		375.8
(3) 		154
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 49
1 2 3 4 range
A 82.6
(3)
P 		33.8
(-3)
P 		43.5
(-1.8)
P 		35.8
(-2.8)
P 		49
B 55.2
(3)
P 		41.1
(-1.5)
P 		36.3
(-3)
P 		47.2
(0.5)
P 		19
C 73.5
(3)
P 		44.9
(-2.1)
P 		60.9
(0.7)
P 		40.1
(-3)
P 		33
avr 70.4
(3) 		39.9
(-3) 		46.9
(-1.6) 		41
(-2.8) 		31

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 106
1 2 3 4 5 6 range
A 38.6
(-3)
P 		70.3
(1.2)
P 		58.4
(-0.4)
P 		57.4
(-0.5)
P 		83.9
(3)
P 		78.6
(2.3)
P 		45
B 95.7
(-0.1)
P 		80.2
(-1.1)
P 		49.6
(-3)
P 		56.9
(-2.5)
P 		111.6
(0.9)
P 		144.1
(3)
P 		95
C 104.6
(0.7)
P 		94.2
(-0)
P 		49
(-3)
P 		52.8
(-2.7)
P 		84.7
(-0.6)
P 		140
(3)
P 		91
avr 79.6
(-0.6) 		81.6
(-0.4) 		52.3
(-3) 		55.7
(-2.7) 		93.4
(0.6) 		120.9
(3) 		69
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186104_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1265
Sequence Type Exemplar sequence
Representative Public ID VF39H2L.1 NCBI
Target Description VF39H2L.1 /REP_DB=WormBase Gene ID /WP=CE18300 /TR=O62387 /GB=CAB10725.1 /SUBMIT=HINXTON /CHR=1 /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_059941(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059941 NCBI Caenorhabditis elegans VF39H2L.1 (VF39H2L.1) mRNA, complete cds. 11/11 None
SNAP00000042154 ENSEMBL cdna:SNAP chromosome:CEL140:I:8652585:8654130:1 10/11 None
GENEFINDER00000042157 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8652585:8654243:1 11/11 None
VF39H2L.1 ENSEMBL cdna:known chromosome:CEL140:I:8652600:8654311:1 gene:VF39H2L.1 11/11 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
chrI:8652554-8654174(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl VF39H2L.1
Entrez Gene 172663 Entrez gene
SwissProt O62387 EMBL-EBI
WormBase CE18300 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB10725 Hypothetical protein VF39H2L.1 [Caenorhabditis elegans] ref|NP_492342.1| VF39H2L.1 [Caenorhabditis elegans] 1.0E-108
blast CAB10725 Hypothetical protein VF39H2L.1 [Caenorhabditis elegans] ref|NP_492342.1| VF39H2L.1 [Caenorhabditis elegans] 1.0E-102
blast CAE67084 Hypothetical protein CBG12495 [Caenorhabditis briggsae] 2.0E-91
blast CAE67084 Hypothetical protein CBG12495 [Caenorhabditis briggsae] 3.0E-87
blast CAE67084 Hypothetical protein CBG12495 [Caenorhabditis briggsae] 5.0E-87
Protein Domains
Database ID Description E-Value
Pfam IPR000727 EMBL-EBI Target SNARE coiled-coil domain 1.1E-18
Pfam IPR000727 EMBL-EBI Target SNARE coiled-coil domain 1.1E-18
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492342.1 2 199-218,222-244
VF39H2L.1 2 199-218,222-244
SNAP00000042154 1 214-236
GENEFINDER00000042157 1 229-251
Sequence
Target Sequence 
>C. ELEGANS:186104_AT
tacgtggtattctcacagttcgtggagagttgcatgattcacgacaagaaaatgaatttg
attctataattgaccctatcagacagcaaattaaaaccttgttaaatgtgacaagatccc
tacccgctgtcaatttacccggatcaaatccttttgaacaagcaacagaagacgataatc
catatgaaatggaatcacgaagatacctccgagaaacaacgttgaaagacaatgaactac
gacaattggcagatgatatgaaggaacgggctgaagcgacagtgaaaattgaaaaggata
tggctgatttagagaaaatatttcaagaacttggaagaattgttcacgaacaacatgatg
ttgtagattcaattgaggagcaggttgaaagagcaactgaagatgttaaacgaggaaatg
agaatttgaaaaaagctgtgaaatcgaaagcggcgaaggctccactttatgccggagttg
tgggtggacttgcagtcggagggcctgttggattggcagctggatcagctattgctggaa
ttgcagctggtgtcggaggtttagtcgctacaatctacaccggga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TACGTGGTATTCTCACAGTTCGTGG 260 643 149 Antisense
GATTCTATAATTGACCCTATCAGAC 603 431 208 Antisense
TAAATGTGACAAGATCCCTACCCGC 618 639 251 Antisense
ACCCGCTGTCAATTTACCCGGATCA 237 89 270 Antisense
GAATCACGAAGATACCTCCGAGAAA 488 327 340 Antisense
GAAGGCTCCACTTTATGCCGGAGTT 80 333 603 Antisense
GGAGTTGTGGGTGGACTTGCAGTCG 258 517 622 Antisense
CTTGCAGTCGGAGGGCCTGTTGGAT 240 215 637 Antisense
GGCCTGTTGGATTGGCAGCTGGATC 160 543 650 Antisense
GGAATTGCAGCTGGTGTCGGAGGTT 568 531 685 Antisense
TTAGTCGCTACAATCTACACCGGGA 578 681 709 Antisense
Sequence Source Affymetrix Proprietary Database