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[179996_at]

Description Y39E4B.6 /REP_DB=WormBase Gene ID /WP=CE21718 /TR=Q9U2K4 /GB=CAB54428.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 74      4grp_total > 10      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 143
1 2 3 4 range
A 104.7
(-3)
A 		119.3
(-1.8)
A 		106.3
(-2.9)
A 		179.5
(3)
A 		75
B 65.4
(-3)
A 		70.8
(-2.6)
A 		93
(-0.7)
A 		138.1
(3)
A 		73
C 90.5
(-1.3)
A 		111.2
(-0.5)
A 		50.5
(-3)
A 		193.6
(3)
A 		143
avr 86.9
(-2.8) 		100.4
(-1.8) 		83.3
(-3) 		170.4
(3) 		87

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 101
1 2 3 4 5 6 range
A 16.7
(-3)
A 		32.1
(-2.1)
A 		44.9
(-1.3)
A 		71.6
(0.3)
A 		76.5
(0.6)
A 		117.6
(3)
A 		101
B 50.5
(-1.9)
A 		56.1
(-1.2)
A 		75.8
(1.4)
A 		88.4
(3)
A 		49.7
(-2)
A 		42.2
(-3)
A 		46
C 33.6
(-2.4)
A 		29.4
(-3)
A 		70.2
(2.4)
A 		74.7
(3)
A 		33.4
(-2.5)
A 		36.9
(-2)
A 		45
avr 33.6
(-3) 		39.2
(-2.2) 		63.6
(1) 		78.2
(3) 		53.2
(-0.4) 		65.6
(1.3) 		45
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 21
1 2 3 4 range
A 38.1
(3)
A 		25.9
(-3)
A 		27.8
(-2.1)
A 		26.3
(-2.8)
A 		12
B 20.8
(-1.3)
A 		17.5
(-3)
A 		21.6
(-0.9)
A 		29.4
(3)
A 		12
C 29.9
(1.9)
A 		32
(2.8)
A 		17.6
(-3)
A 		32.6
(3)
A 		15
avr 29.6
(3) 		25.1
(-0.7) 		22.3
(-3) 		29.4
(2.8) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 26
1 2 3 4 5 6 range
A 3.1
(-3)
A 		11.4
(-1)
A 		9.8
(-1.4)
A 		18.2
(0.6)
A 		23.1
(1.7)
A 		28.6
(3)
A 		26
B 17.6
(-1.5)
A 		18.7
(-0.7)
A 		18.4
(-0.9)
A 		23.4
(3)
A 		20.2
(0.5)
A 		15.7
(-3)
A 		8
C 12.5
(-0.6)
A 		9
(-3)
A 		17.9
(3)
A 		15
(1)
A 		10.8
(-1.8)
A 		12.4
(-0.7)
A 		9
avr 11.1
(-3) 		13
(-1.5) 		15.4
(0.3) 		18.9
(3) 		18
(2.3) 		18.9
(3) 		8
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 179996_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6030
Sequence Type Exemplar sequence
Representative Public ID Y39E4B.6 NCBI
Target Description Y39E4B.6 /REP_DB=WormBase Gene ID /WP=CE21718 /TR=Q9U2K4 /GB=CAB54428.1 /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_067309(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067309 NCBI Caenorhabditis elegans Y39E4B.6 (Y39E4B.6) mRNA, complete cds. 11/11 None
SNAP00000012005 ENSEMBL cdna:SNAP chromosome:CEL140:III:13070525:13073543:1 11/11 None
GENEFINDER00000012022 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13070525:13073543:1 11/11 None
Y39E4B.6 ENSEMBL cdna:known chromosome:CEL140:III:13070276:13074216:1 gene:Y39E4B.6 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:13070520-13073539(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39E4B.6
Entrez Gene 176728 Entrez gene
SwissProt Q9U2K4 EMBL-EBI
WormBase CE21718 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB54428 Hypothetical protein Y39E4B.6 [Caenorhabditis elegans] ref|NP_499710.1| Y39E4B.6 [Caenorhabditis elegans] 1.0E-112
blast CAE56456 Hypothetical protein CBG24164 [Caenorhabditis briggsae] 3.0E-68
Sequence
Target Sequence 
>C. ELEGANS:179996_AT
cctactcgccagactattctgacgatgagaagacgaagccgactaagaaaaatcagaaga
gacctgacaaacaggacagattcggaatggctccacccaacagtacccagttcttattag
aggatcgtgaagcgagagcagatgccgagtttgagaacgagcagaaattcgaggctgccg
agcgtcgccgggtccgaacaatgagcggatcctacgagcatatgcgcccggcctattggt
gcacaattgagcctgcaacaacgacggcggactttggaagcgacgacaacaacgatcttg
acagcacctccggtgagagcgaggccgatcgagagatggagcgagaattcgagaccgact
acctggaagtgaagcgtgaacggattcagagtatgactagatcgcagctcgccgccgaac
ttctcgagagagatcaggacacgcaagttctgacacgagagttaggatccaaggagaccg
agaatcgacaccttcggagccttctctccgcacatgggatctctccggatgagc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCTACTCGCCAGACTATTCTGACGA 350 269 131 Antisense
CACCCAACAGTACCCAGTTCTTATT 418 197 224 Antisense
AGAAATTCGAGGCTGCCGAGCGTCG 640 65 293 Antisense
GTCGCCGGGTCCGAACAATGAGCGG 534 473 314 Antisense
GCGGATCCTACGAGCATATGCGCCC 195 293 335 Antisense
GACGGCGGACTTTGGAAGCGACGAC 76 377 393 Antisense
TTGACAGCACCTCCGGTGAGAGCGA 184 703 428 Antisense
ATTCGAGACCGACTACCTGGAAGTG 151 9 477 Antisense
GAGTATGACTAGATCGCAGCTCGCC 72 399 519 Antisense
AGGACACGCAAGTTCTGACACGAGA 209 55 566 Antisense
GCACATGGGATCTCTCCGGATGAGC 435 317 640 Antisense
Sequence Source Affymetrix Proprietary Database