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[183335_at]

Description Y39B6B.L /REP_DB=WormBase Gene ID /WP=CE21687 /TR=Q9NEU8 /GB=CAB60917.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 71      4grp_high_8_8 > 34      6grp_total > 70      4grp_total > 45      6grp_high1_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 393
1 2 3 4 range
A 433.9
(3)
P 		303
(0.5)
P 		152.4
(-2.4)
P 		122
(-3)
P 		312
B 409.5
(3)
P 		270.5
(0.7)
P 		146.3
(-1.3)
P 		41.3
(-3)
A 		368
C 270.5
(3)
P 		136.8
(-2.3)
P 		139.5
(-2.2)
P 		118.4
(-3)
M 		152
avr 371.3
(3) 		236.8
(0.1) 		146.1
(-1.9) 		93.9
(-3) 		277

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 132
1 2 3 4 5 6 range
A 94.2
(-3)
A 		105
(-1.8)
A 		97.1
(-2.7)
P 		149.7
(3)
P 		112.5
(-1)
A 		123.9
(0.2)
A 		56
B 112.2
(-3)
P 		137.8
(0.2)
P 		154.3
(2.2)
P 		160.5
(3)
P 		142.2
(0.7)
P 		121.4
(-1.9)
P 		48
C 95.6
(-3)
P 		155.7
(-0.2)
P 		140.5
(-0.9)
P 		226.3
(3)
P 		114.8
(-2.1)
P 		118.7
(-1.9)
P 		131
avr 100.7
(-3) 		132.8
(-0.5) 		130.6
(-0.7) 		178.8
(3) 		123.2
(-1.3) 		121.3
(-1.4) 		78
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 149
1 2 3 4 range
A 158
(3)
P 		65.8
(-0.9)
P 		39.9
(-2.1)
P 		17.9
(-3)
P 		140
B 130.6
(3)
P 		66.8
(-0.1)
P 		33.9
(-1.8)
P 		8.8
(-3)
A 		122
C 89.6
(3)
P 		39.3
(-1.3)
P 		48.6
(-0.5)
P 		20
(-3)
M 		70
avr 126.1
(3) 		57.3
(-0.7) 		40.8
(-1.6) 		15.6
(-3) 		111

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 40
1 2 3 4 5 6 range
A 17.4
(-3)
A 		37.4
(2.8)
A 		21.1
(-1.9)
P 		38
(3)
P 		34
(1.8)
A 		30.2
(0.7)
A 		21
B 39
(-2.6)
P 		45.9
(-0.5)
P 		37.5
(-3)
P 		42.5
(-1.5)
P 		57.8
(3)
P 		45.3
(-0.7)
P 		20
C 35.4
(-3)
P 		47.5
(3)
P 		35.7
(-2.9)
P 		45.5
(2)
P 		37.1
(-2.2)
P 		39.7
(-0.9)
P 		12
avr 30.6
(-3) 		43.6
(3) 		31.4
(-2.6) 		42
(2.3) 		43
(2.7) 		38.4
(0.6) 		13
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 183335_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19462
Sequence Type Exemplar sequence
Representative Public ID Y39B6B.L NCBI
Target Description Y39B6B.L /REP_DB=WormBase Gene ID /WP=CE21687 /TR=Q9NEU8 /GB=CAB60917.1 /SUBMIT=HINXTON /CHR=5 /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_171578(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171578 NCBI Caenorhabditis elegans Y39B6A.29 (Y39B6A.29) mRNA, complete cds. 11/11 None
SNAP00000030536 ENSEMBL cdna:SNAP chromosome:CEL140:V:19023072:19027338:-1 11/11 None
GENEFINDER00000030715 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:19023072:19027338:-1 11/11 None
Y39B6A.29 ENSEMBL cdna:known chromosome:CEL140:V:19023072:19027338:-1 gene:Y39B6A.29 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
chrV:19023071-19027338(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39B6A.29
Entrez Gene 189739 Entrez gene
SwissProt Q9NEU8 EMBL-EBI
WormBase CE36620 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAC51051 Hypothetical protein Y39B6A.29 [Caenorhabditis elegans] ref|NP_741668.2| Y39B6A.29 [Caenorhabditis elegans] 0.0
blast CAE56977 Hypothetical protein CBG24830 [Caenorhabditis briggsae] 1.0E-180
blast CAE56977 Hypothetical protein CBG24830 [Caenorhabditis briggsae] 1.0E-165
blast AAB37612 Hypothetical protein B0554.5 [Caenorhabditis elegans] ref|NP_503197.1| B0554.5 [Caenorhabditis elegans] 1.0E-143
blast AAB37612 Hypothetical protein B0554.5 [Caenorhabditis elegans] ref|NP_503197.1| B0554.5 [Caenorhabditis elegans] 1.0E-132
Protein Domains
Database ID Description E-Value
Pfam IPR010291 EMBL-EBI Eukaryotic protein of unknown function DUF895 7.5E-74
Pfam IPR010291 EMBL-EBI Eukaryotic protein of unknown function DUF895 1.5E-34
Pfam IPR010291 EMBL-EBI Eukaryotic protein of unknown function DUF895 2.6E-8
Pfam IPR010291 EMBL-EBI Eukaryotic protein of unknown function DUF895 4.5E-58
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_741668.2 12 12-34,54-76,83-102,107-129,142-164,197-216,253-275,285-307,320-339,354-373,394-416,420-442
Y39B6A.29 12 12-34,54-76,83-102,107-129,142-164,197-216,253-275,285-307,320-339,354-373,394-416,420-442
SNAP00000030536 8 12-34,54-76,127-144,179-201,214-236,246-268,281-303,347-369
GENEFINDER00000030715 12 57-76,120-142,149-168,173-195,208-230,263-282,319-341,351-373,386-405,420-439,460-482,486-508
Sequence
Target Sequence 
>C. ELEGANS:183335_AT
tgttcacagtgctcgggactagctcctcattctggttatccattttcacaactgccatga
attttacggctgctaactcgaatttgacatatctcgcagcaatatacccattgagtgttg
gagttggagaaattggaaccgctctattcatcacccaaatgagccgacgtttcaaagact
tcagcctgcagccgacaatgttaattggggcaattttctcgattctgggatttggtttgg
tgcacgtttctacaccatatgatgctccaatgagaccgacacaagaggttcctctgcttt
ttggacacagctaccttgtgatctccgtcattggcgtgatagttggaattggtgattgtt
gcttgaacagctgccgatctgtgatttgtgctctggcaatgcctgatcggagagctcaag
ctttttcaatttccaaactttatcaggccctgggctcttgtgtactgttcttcgcaagtc
ccatcattccattgtatgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGTTCACAGTGCTCGGGACTAGCTC 415 561 977 Antisense
GCTCCTCATTCTGGTTATCCATTTT 267 299 998 Antisense
GAGCCGACGTTTCAAAGACTTCAGC 113 385 1137 Antisense
TTCAGCCTGCAGCCGACAATGTTAA 416 687 1156 Antisense
GATTTGGTTTGGTGCACGTTTCTAC 702 425 1205 Antisense
TGGACACAGCTACCTTGTGATCTCC 109 549 1278 Antisense
TGATCTCCGTCATTGGCGTGATAGT 161 565 1295 Antisense
CTGCCGATCTGTGATTTGTGCTCTG 73 237 1347 Antisense
GAGCTCAAGCTTTTTCAATTTCCAA 668 383 1388 Antisense
ATCAGGCCCTGGGCTCTTGTGTACT 336 29 1418 Antisense
AAGTCCCATCATTCCATTGTATGTC 601 157 1452 Antisense
Sequence Source Affymetrix Proprietary Database