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[172602_x_at] --- /// --- /// ---

Description VB0393L.2 /REP_DB=WormBase Gene ID /WP=CE24024 /TR=Q9U356 /GB=CAB54318.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 59      6grp_high1_10_10 > 95      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 49      6grp_total > 85      4grp_total > 03      6grp_highest_sub > In      6grp_high1_sub > In      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20115
1 2 3 4 range
A 2697.4
(-2.5)
P 		1656.3
(-2.9)
P 		1254.9
(-3)
P 		20134.7
(3)
P 		18880
B 2696.7
(-2.6)
P 		1741.9
(-2.9)
P 		1471.4
(-3)
P 		18715.4
(3)
P 		17244
C 2980.9
(-2.5)
P 		1551.9
(-2.9)
P 		1346.4
(-3)
P 		21369.5
(3)
P 		20023
avr 2791.7
(-2.5) 		1650
(-2.9) 		1357.6
(-3) 		20073.2
(3) 		18716

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4565
1 2 3 4 5 6 range
A 3849.3
(-2.4)
P 		3483.6
(-3)
P 		4781.8
(-0.8)
P 		5031.1
(-0.3)
P 		6083.5
(1.5)
P 		6978.4
(3)
P 		3495
B 3358.2
(-2.9)
P 		3296.8
(-3)
P 		3674.8
(-2.3)
P 		5634.9
(1.6)
P 		5662.6
(1.7)
P 		6345.3
(3)
P 		3049
C 3607.1
(-2.7)
P 		3362.7
(-3)
P 		3932.7
(-2.2)
P 		6763.1
(1.5)
P 		5495.5
(-0.2)
P 		7861.6
(3)
P 		4499
avr 3604.9
(-2.6) 		3381
(-3) 		4129.8
(-1.8) 		5809.7
(1) 		5747.2
(0.9) 		7061.8
(3) 		3681
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3660
1 2 3 4 range
A 982.1
(-1.5)
P 		359.5
(-2.9)
P 		328.1
(-3)
P 		2947.3
(3)
P 		2619
B 860
(-2.1)
P 		430.2
(-2.9)
P 		341
(-3)
P 		3988.3
(3)
P 		3647
C 986.8
(-2)
P 		446.2
(-3)
P 		469.3
(-3)
P 		3603.2
(3)
P 		3157
avr 943
(-1.9) 		412
(-2.9) 		379.5
(-3) 		3512.9
(3) 		3133

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1922
1 2 3 4 5 6 range
A 709.6
(-3)
P 		1239
(-0.2)
P 		1041.4
(-1.2)
P 		1276
(0)
P 		1835.7
(3)
P 		1699
(2.3)
P 		1126
B 1168.5
(-1.9)
P 		1097.4
(-2.2)
P 		892.3
(-3)
P 		1492.5
(-0.6)
P 		2300.6
(2.7)
P 		2366.1
(3)
P 		1474
C 1337
(-1.8)
P 		1026.1
(-2.9)
P 		1000.9
(-3)
P 		1360.1
(-1.7)
P 		1778.3
(-0.1)
P 		2631.7
(3)
P 		1631
avr 1071.7
(-2.6) 		1120.8
(-2.3) 		978.2
(-3) 		1376.2
(-1.1) 		1971.5
(1.8) 		2232.3
(3) 		1254
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172602_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7111
Sequence Type Exemplar sequence
Representative Public ID VB0393L.2 NCBI
Target Description VB0393L.2 /REP_DB=WormBase Gene ID /WP=CE24024 /TR=Q9U356 /GB=CAB54318.1 /SUBMIT=HINXTON /CHR=3 /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_066125(9), NM_065576(11), NM_065575(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066125 NCBI Caenorhabditis elegans F31E3.6 (F31E3.6) mRNA, complete cds. 9/11 None
NM_065576 NCBI Caenorhabditis elegans B0393.8 (B0393.8) mRNA, complete cds. 11/11 None
NM_065575 NCBI Caenorhabditis elegans VB0393L.2 (VB0393L.2) mRNA, complete cds. 11/11 None
VB0393L.2 ENSEMBL cdna:known chromosome:CEL140:III:4749756:4750248:1 gene:VB0393L.2 11/11 None
B0393.8 ENSEMBL cdna:known chromosome:CEL140:III:4751840:4752332:-1 gene:B0393.8 11/11 None
F31E3.6 ENSEMBL cdna:known chromosome:CEL140:III:6982441:6982993:1 gene:F31E3.6 9/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_059609 7/11 Cross Hyb Matching Probes A 
F22D6.14 7/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:4749755-4750152(+) 90.85 100.0
chrIII:6982498-6982895(+) 90.2 99.35
chrIII:4751935-4752332(-) 90.85 100.0
chrIII:6984490-6984887(-) 89.87 99.02
Public Domain and Genome References
Gene Title


Ensembl VB0393L.2
B0393.8
F31E3.6
Entrez Gene 181959 Entrez gene
185154 Entrez gene
189064 Entrez gene
SwissProt Q9U3S4 EMBL-EBI
Q19935 EMBL-EBI
WormBase CE32101 Wormbase
CE29302 Wormbase
CE32101 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB54188 Hypothetical protein B0393.8 [Caenorhabditis elegans] emb|CAB54318.2| Hypothetical protein VB0393L.2 [Caenorhabditis elegans] ref|NP_497976.2| VB0393L.2 [Caenorhabditis elegans] ref|NP_497977.2| B0393.8 [Caenorhabditis elegans] 4.0E-71
blast AAA81692 Hypothetical protein F31E3.6 [Caenorhabditis elegans] ref|NP_498526.1| F31E3.6 [Caenorhabditis elegans] 7.0E-71
blast CAB54188 Hypothetical protein B0393.8 [Caenorhabditis elegans] emb|CAB54318.2| Hypothetical protein VB0393L.2 [Caenorhabditis elegans] ref|NP_497976.2| VB0393L.2 [Caenorhabditis elegans] ref|NP_497977.2| B0393.8 [Caenorhabditis elegans] 2.0E-69
blast AAA81692 Hypothetical protein F31E3.6 [Caenorhabditis elegans] ref|NP_498526.1| F31E3.6 [Caenorhabditis elegans] 2.0E-69
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_498526.1 1 86-105
NP_497977.2 1 86-105
NP_497976.2 1 86-105
VB0393L.2 1 86-105
B0393.8 1 86-105
F31E3.6 1 86-105
Sequence
Target Sequence 
>C. ELEGANS:172602_X_AT
agatattggtcatcgcaaagtcaaatgctcaatctctgcggaagacttttctacactcgt
gccttccgaaaatgtcgctctctcagccttggtcgcatagttttgaaatctgtcaagaac
acaatacgcagaagcgcatcagctattcacggctacatcgatcaattggacgtctccgtg
tattcctaacagat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGATATTGGTCATCGCAAAGTCAAA 589 65 44 Antisense
GTCAAATGCTCAATCTCTGCGGAAG 387 465 63 Antisense
TGCGGAAGACTTTTCTACACTCGTG 113 579 80 Antisense
TACACTCGTGCCTTCCGAAAATGTC 366 643 95 Antisense
CTTCCGAAAATGTCGCTCTCTCAGC 56 221 106 Antisense
CTCTCAGCCTTGGTCGCATAGTTTT 121 231 123 Antisense
GGTCGCATAGTTTTGAAATCTGTCA 4 503 134 Antisense
AATACGCAGAAGCGCATCAGCTATT 421 171 166 Antisense
GCATCAGCTATTCACGGCTACATCG 586 307 179 Antisense
ACATCGATCAATTGGACGTCTCCGT 415 105 198 Antisense
ACGTCTCCGTGTATTCCTAACAGAT 151 95 213 Antisense
Sequence Source Affymetrix Proprietary Database