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[186376_at]

Description Y39A1A.20 /REP_DB=WormBase Gene ID /WP=CE19140 /TR=Q9XX30 /GB=CAA21010.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 72      6grp_high1_10_10 > 37      4grp_highest_8_8 > 37      4grp_high_8_8 > 03      6grp_highest_nonorm > 80      6grp_total > 18      4grp_total > 07      6grp_highest_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 163
1 2 3 4 range
A 284.3
(0.4)
P 		193.4
(-3)
P 		304.9
(1.2)
P 		351.6
(3)
P 		158
B 233.7
(0.6)
P 		249.8
(3)
P 		209.7
(-3)
P 		213.5
(-2.4)
P 		40
C 318.1
(1)
P 		241.3
(-3)
P 		250.7
(-2.5)
P 		356.1
(3)
P 		115
avr 278.7
(0.8) 		228.2
(-3) 		255.1
(-1) 		307.1
(3) 		79

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 156
1 2 3 4 5 6 range
A 236.8
(3)
P 		180.4
(-3)
P 		216.7
(0.9)
P 		188.6
(-2.1)
P 		215
(0.7)
P 		202.1
(-0.7)
P 		56
B 326.9
(3)
P 		197.6
(-2.4)
P 		220.4
(-1.4)
P 		182.5
(-3)
P 		215.2
(-1.6)
P 		273.6
(0.8)
P 		144
C 265.8
(3)
P 		215.6
(-0.2)
P 		215.3
(-0.2)
P 		203.2
(-1)
P 		171.1
(-3)
P 		211.4
(-0.4)
P 		95
avr 276.5
(3) 		197.9
(-2.5) 		217.5
(-1.2) 		191.4
(-3) 		200.4
(-2.4) 		229
(-0.3) 		85
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 63
1 2 3 4 range
A 103.5
(3)
P 		42
(-3)
P 		79.7
(0.7)
P 		51.5
(-2.1)
P 		62
B 74.5
(3)
P 		61.7
(0.4)
P 		48.6
(-2.4)
P 		45.5
(-3)
P 		29
C 105.3
(3)
P 		69.4
(-1.8)
P 		87.4
(0.6)
P 		60
(-3)
P 		45
avr 94.4
(3) 		57.7
(-2.2) 		71.9
(-0.2) 		52.3
(-3) 		42

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 73
1 2 3 4 5 6 range
A 43.6
(-3)
P 		64.2
(2.8)
P 		47.2
(-2)
P 		47.8
(-1.8)
P 		64.9
(3)
P 		49.2
(-1.4)
P 		21
B 113.8
(3)
P 		65.8
(-1.4)
P 		53.5
(-2.5)
P 		48.3
(-3)
P 		87.4
(0.6)
P 		102
(1.9)
P 		66
C 98.5
(3)
P 		65.8
(-0.4)
P 		54.8
(-1.6)
P 		40.9
(-3)
P 		55.4
(-1.5)
P 		70.8
(0.1)
P 		58
avr 85.3
(3) 		65.3
(-0) 		51.8
(-2.1) 		45.7
(-3) 		69.2
(0.6) 		74
(1.3) 		40
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186376_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6647
Sequence Type Exemplar sequence
Representative Public ID Y39A1A.20 NCBI
Target Description Y39A1A.20 /REP_DB=WormBase Gene ID /WP=CE19140 /TR=Q9XX30 /GB=CAA21010.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Genome Target Overlap based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade B annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_066956
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
Y39A1A.20 ENSEMBL cdna:known chromosome:CEL140:III:10699168:10700436:-1 gene:Y39A1A.20 None
SNAP00000012927 ENSEMBL cdna:SNAP chromosome:CEL140:III:10699168:10700436:-1 None
NM_066956 NCBI Caenorhabditis elegans Y39A1A.20 (Y39A1A.20) mRNA, complete cds. 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:10699163-10700432(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39A1A.20
Entrez Gene 176492 Entrez gene
SwissProt Q9XX30 EMBL-EBI
WormBase CE34114 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA21010 Hypothetical protein Y39A1A.20 [Caenorhabditis elegans] ref|NP_499357.2| Y39A1A.20 [Caenorhabditis elegans] 6.0E-61
blast CAE71418 Hypothetical protein CBG18328 [Caenorhabditis briggsae] 4.0E-52
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499357.2 1 44-66
Y39A1A.20 1 44-66
SNAP00000012927 1 44-66
Sequence
Target Sequence 
>C. ELEGANS:186376_AT
agcgtcgaacagctttcttgtgagcttcagccgcactcgagccacatattatcaacagaa
tcagaggtttccgccagcttttgttcgaagcttgaaaaaaccacttttttttgaaaattg
gaattttctcgtttccttctccgctacccaagtgctcatctatatcttgtctttggtctc
tgctcgtcggcaatggtggctccagttctacactcggttctgttacctgtacatgacaat
gtcgaaaaacgaattcgaacagtatcgtgtggagcagaatgcagtcgttttggaaagaca
gaaatttgggaaaggattgtggtttccgtttatgtcgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGCGTCGAACAGCTTTCTTGTGAGC 485 81 24 Antisense
ACAGCTTTCTTGTGAGCTTCAGCCG 342 109 32 Antisense
CGCACTCGAGCCACATATTATCAAC 148 255 55 Antisense
AACAGAATCAGAGGTTTCCGCCAGC 214 137 77 Antisense
TTCCGCCAGCTTTTGTTCGAAGCTT 242 699 92 Antisense
CTACCCAAGTGCTCATCTATATCTT 585 225 167 Antisense
TCTATATCTTGTCTTTGGTCTCTGC 99 615 182 Antisense
TCCAGTTCTACACTCGGTTCTGTTA 135 591 224 Antisense
GGTTCTGTTACCTGTACATGACAAT 690 505 239 Antisense
GTGGAGCAGAATGCAGTCGTTTTGG 137 491 292 Antisense
GATTGTGGTTTCCGTTTATGTCGAA 624 433 338 Antisense
Sequence Source Affymetrix Proprietary Database