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[172668_x_at]

Description Y39A3CL.3 /REP_DB=WormBase Gene ID /WP=CE21651 /TR=Q9N416 /GB=AAF60518.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 57      6grp_high1_10_10 > 75      4grp_highest_8_8 > 28      4grp_high_8_8 > 31      6grp_highest_nonorm > 56      6grp_total > 65      4grp_total > 32      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 593
1 2 3 4 range
A 2219.9
(-1)
P 		2087.2
(-3)
P 		2491
(3)
P 		2143
(-2.2)
P 		404
B 2179.9
(0.6)
P 		1898.4
(-3)
P 		2355.4
(2.8)
P 		2371.7
(3)
P 		473
C 2045.6
(-3)
P 		2101.2
(-2)
P 		2389.1
(3)
P 		2305.4
(1.5)
P 		344
avr 2148.5
(-1.1) 		2028.9
(-3) 		2411.8
(3) 		2273.4
(0.8) 		383

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1082
1 2 3 4 5 6 range
A 1694
(-3)
P 		1832.2
(-1.7)
P 		2331.1
(3)
P 		1979.9
(-0.3)
P 		1707.2
(-2.9)
P 		1946.2
(-0.6)
P 		637
B 2034.4
(1.6)
P 		2008.5
(1.3)
P 		2142.7
(2.9)
P 		1648.7
(-3)
P 		2089.9
(2.3)
P 		2148.1
(3)
P 		499
C 1946.2
(-2.7)
P 		1899
(-3)
P 		1949.4
(-2.6)
P 		2398.2
(0.6)
P 		1971.7
(-2.5)
P 		2730.2
(3)
P 		831
avr 1891.5
(-3) 		1913.2
(-2.7) 		2141.1
(0.9) 		2008.9
(-1.2) 		1922.9
(-2.5) 		2274.8
(3) 		383
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 519
1 2 3 4 range
A 808.3
(3)
P 		453.1
(-1.3)
P 		651.2
(1.1)
P 		313.7
(-3)
P 		495
B 695.2
(3)
P 		468.9
(-3)
P 		545.8
(-1)
P 		505.4
(-2)
P 		226
C 677.1
(0.9)
P 		604.1
(-0.1)
P 		832.7
(3)
P 		388.7
(-3)
P 		444
avr 726.9
(3) 		508.7
(-1) 		676.6
(2.1) 		402.6
(-3) 		324

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 602
1 2 3 4 5 6 range
A 312.3
(-3)
P 		651.6
(3)
P 		507.7
(0.5)
P 		502.2
(0.4)
P 		515.2
(0.6)
P 		473.8
(-0.1)
P 		339
B 707.9
(0.9)
P 		668.6
(0.4)
P 		520.3
(-1.8)
P 		436.7
(-3)
P 		849.1
(3)
P 		801
(2.3)
P 		412
C 721.4
(0.3)
P 		579.4
(-1.7)
P 		496.2
(-2.8)
P 		482.3
(-3)
P 		638
(-0.8)
P 		914
(3)
P 		432
avr 580.5
(-0.5) 		633.2
(0.7) 		508.1
(-2.2) 		473.7
(-3) 		667.4
(1.5) 		729.6
(3) 		256
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172668_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8203
Sequence Type Exemplar sequence
Representative Public ID Y39A3CL.3 NCBI
Target Description Y39A3CL.3 /REP_DB=WormBase Gene ID /WP=CE21651 /TR=Q9N416 /GB=AAF60518.1 /SUBMIT=ST.LOUIS /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_065057(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065057 NCBI Caenorhabditis elegans Y39A3CL.3 (Y39A3CL.3) mRNA, complete cds. 11/11 None
SNAP00000009080 ENSEMBL cdna:SNAP chromosome:CEL140:III:1777791:1799795:1 11/11 None
GENEFINDER00000009097 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:1777799:1778233:1 11/11 None
Y39A3CL.3 ENSEMBL cdna:known chromosome:CEL140:III:1777799:1778233:1 gene:Y39A3CL.3 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
chrIII:1777798-1778233(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39A3CL.3
Entrez Gene 189725 Entrez gene
SwissProt Q9N416 EMBL-EBI
WormBase CE21651 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF60519 Temporarily assigned gene name protein 168 [Caenorhabditis elegans] ref|NP_497459.1| Temporarily Assigned Gene name family member (tag-168) [Caenorhabditis elegans] 6.0E-36
blast CAE69160 Hypothetical protein CBG15191 [Caenorhabditis briggsae] 2.0E-22
blast AAF60518 Hypothetical protein Y39A3CL.3 [Caenorhabditis elegans] ref|NP_497458.1| Y39A3CL.3 [Caenorhabditis elegans] 3.0E-21
blast CAE69158 Hypothetical protein CBG15189 [Caenorhabditis briggsae] 4.0E-21
blast AAF60518 Hypothetical protein Y39A3CL.3 [Caenorhabditis elegans] ref|NP_497458.1| Y39A3CL.3 [Caenorhabditis elegans] 7.0E-13
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_497458.1 1 23-45
Y39A3CL.3 1 23-45
GENEFINDER00000009097 1 23-45
Sequence
Target Sequence 
>C. ELEGANS:172668_X_AT
gccggtggtccagaactcgacaaaatggcgtcggaaaaggtgaagaaggatattggcacg
tttatcacgtttggactcctagttgaagccgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCGGTGGTCCAGAACTCGACAAAA 664 283 28 Antisense
AGAACTCGACAAAATGGCGTCGGAA 188 73 39 Antisense
ATGGCGTCGGAAAAGGTGAAGAAGG 498 49 52 Antisense
TGAAGAAGGATATTGGCACGTTTAT 269 575 68 Antisense
AAGGATATTGGCACGTTTATCACGT 236 159 73 Antisense
GATATTGGCACGTTTATCACGTTTG 522 427 76 Antisense
GGCACGTTTATCACGTTTGGACTCC 187 535 82 Antisense
CGTTTATCACGTTTGGACTCCTAGT 187 247 86 Antisense
GTTTATCACGTTTGGACTCCTAGTT 648 447 87 Antisense
TATCACGTTTGGACTCCTAGTTGAA 507 659 90 Antisense
CGTTTGGACTCCTAGTTGAAGCCGC 351 243 95 Antisense
Sequence Source Affymetrix Proprietary Database