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[185154_at]

Description Y39C12A.1 /REP_DB=WormBase Gene ID /WP=CE25264 /TR=Q9U2L2 /GB=CAB60494.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 37      6grp_high1_10_10 > 73      4grp_highest_8_8 > 02      4grp_high_8_8 > 46      6grp_highest_nonorm > 72      6grp_total > 70      4grp_total > 49      6grp_highest_sub > 03_04      6grp_high1_sub > 03_04      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 348
1 2 3 4 range
A 280.2
(-3)
P 		567.8
(3)
P 		455.2
(0.7)
P 		333.3
(-1.9)
P 		288
B 258.2
(-3)
P 		543.3
(1.9)
P 		606
(3)
P 		433.9
(0)
P 		348
C 364.9
(-1.2)
P 		527.1
(2)
P 		575.1
(3)
P 		273.5
(-3)
P 		302
avr 301.1
(-3) 		546.1
(3) 		545.4
(3) 		346.9
(-1.9) 		245

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 362
1 2 3 4 5 6 range
A 420.6
(-0.8)
P 		332.8
(-2.2)
P 		534.9
(1.1)
P 		647.8
(3)
P 		373.7
(-1.5)
P 		286.3
(-3)
P 		362
B 419.2
(-0.9)
P 		343.7
(-2.9)
P 		536.5
(2.3)
P 		564.6
(3)
P 		339.5
(-3)
P 		454
(0.1)
P 		225
C 363.7
(-1.8)
P 		305.7
(-3)
P 		428.9
(-0.5)
P 		605.9
(3)
P 		322.8
(-2.7)
P 		506.8
(1)
P 		300
avr 401.2
(-1.4) 		327.4
(-3) 		500.1
(0.7) 		606.1
(3) 		345.3
(-2.6) 		415.7
(-1.1) 		279
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 154
1 2 3 4 range
A 102
(1.3)
P 		123.3
(3)
P 		119
(2.7)
P 		48.8
(-3)
P 		75
B 82.3
(-3)
P 		134.2
(2.4)
P 		140.4
(3)
P 		92.5
(-1.9)
P 		58
C 120.8
(-0.1)
P 		151.5
(1.1)
P 		200.4
(3)
P 		46.1
(-3)
P 		154
avr 101.7
(-0.4) 		136.3
(1.9) 		153.3
(3) 		62.5
(-3) 		91

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 100
1 2 3 4 5 6 range
A 77.5
(-2.5)
P 		118.4
(0.1)
P 		116.5
(-0)
P 		164.3
(3)
P 		112.8
(-0.3)
P 		69.7
(-3)
P 		95
B 145.9
(0.4)
P 		114.4
(-3)
P 		130.3
(-1.3)
P 		149.5
(0.8)
P 		137.9
(-0.4)
P 		169.3
(3)
P 		55
C 134.8
(0.3)
P 		93.3
(-3)
P 		109.2
(-1.7)
P 		121.9
(-0.8)
P 		104.5
(-2.1)
P 		169.6
(3)
P 		76
avr 119.4
(-1.2) 		108.7
(-3) 		118.7
(-1.4) 		145.2
(3) 		118.4
(-1.4) 		136.2
(1.5) 		37
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 185154_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8645
Sequence Type Exemplar sequence
Representative Public ID Y39C12A.1 NCBI
Target Description Y39C12A.1 /REP_DB=WormBase Gene ID /WP=CE25264 /TR=Q9U2L2 /GB=CAB60494.1 /SUBMIT=HINXTON /CHR=4 /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_069918(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069918 NCBI Caenorhabditis elegans Y39C12A.1 (Y39C12A.1) mRNA, complete cds. 11/11 None
SNAP00000019622 ENSEMBL cdna:SNAP chromosome:CEL140:IV:12222894:12225735:-1 11/11 None
GENEFINDER00000019632 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:12222900:12226918:-1 11/11 None
Y39C12A.1 ENSEMBL cdna:known chromosome:CEL140:IV:12222894:12224176:-1 gene:Y39C12A.1 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
chrIV:12222899-12224182(-) 99.88 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39C12A.1
Entrez Gene 189743 Entrez gene
SwissProt Q9U2L2 EMBL-EBI
WormBase CE25264 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB60494 Hypothetical protein Y39C12A.1 [Caenorhabditis elegans] ref|NP_502319.1| Y39C12A.1 [Caenorhabditis elegans] 1.0E-152
blast CAB60494 Hypothetical protein Y39C12A.1 [Caenorhabditis elegans] ref|NP_502319.1| Y39C12A.1 [Caenorhabditis elegans] 1.0E-124
blast CAE62205 Hypothetical protein CBG06255 [Caenorhabditis briggsae] 5.0E-71
blast CAE62205 Hypothetical protein CBG06255 [Caenorhabditis briggsae] 6.0E-71
blast CAE62205 Hypothetical protein CBG06255 [Caenorhabditis briggsae] 8.0E-71
blast XP_510788 PREDICTED: similar to KIAA1977 protein [Pan troglodytes] 1.0E-14
blast AAY86191 Hypothetical protein F40H6.6 [Caenorhabditis elegans] 2.0E-12
Protein Domains
Database ID Description E-Value
Pfam IPR002110 EMBL-EBI Ankyrin 0.52
Pfam IPR002110 EMBL-EBI Ankyrin 1.4E-4
Pfam IPR001660 EMBL-EBI Sterile alpha motif SAM 1.1E-11
Pfam IPR002110 EMBL-EBI Ankyrin 0.52
Pfam IPR002110 EMBL-EBI Ankyrin 1.4E-4
Pfam IPR001660 EMBL-EBI Sterile alpha motif SAM 1.1E-11
Pfam IPR002110 EMBL-EBI Ankyrin 2.5E-8
Pfam IPR002110 EMBL-EBI Ankyrin 2.6E-9
Pfam IPR002110 EMBL-EBI Ankyrin 0.52
Pfam IPR002110 EMBL-EBI Ankyrin 1.4E-4
Pfam IPR001660 EMBL-EBI Sterile alpha motif SAM 1.1E-11
Sequence
Target Sequence 
>C. ELEGANS:185154_AT
atgaagctgcaatggctgggcatgaaatcacatttattgcacttttagagaaaggaggaa
atcttgaattgaaaaatgcaaaaggagaaaatgcagctgcacttgcgtgtgataacaata
aaattctacaactaatcagcgaacatcaagccgagattgcgaaacaatcatctaaaactg
gaaatcgaggacctcgaagactctccgagttgttggaagaaatggatttaagtcgataca
tcgatcagtttaaacatgaaaatgtcgatttggaagtgttttttgagttgaaagagcaag
attttgttgatatgaacattgcatacggcccaaaaaagagaatgttggatgttattgaga
gatataaaaagactggagttattcgttccgatgcttttgatgcaccacaaggaactgcaa
tgtctaccaaaggaagttctacccgcgaaagcagtgaaaaaacaacagcaactctgaaat
ccatcaaggaattgaatcaagaaaccaagaaatctgtgatgacagctctggagagcttag
gatccggtcaggataaagttcgtgctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGAAGCTGCAATGGCTGGGCATGA 142 45 215 Antisense
CAGCGAACATCAAGCCGAGATTGCG 40 203 351 Antisense
GAGGACCTCGAAGACTCTCCGAGTT 676 403 401 Antisense
ATGAACATTGCATACGGCCCAAAAA 345 43 526 Antisense
GACTGGAGTTATTCGTTCCGATGCT 50 377 585 Antisense
GTTCCGATGCTTTTGATGCACCACA 539 441 599 Antisense
GGAACTGCAATGTCTACCAAAGGAA 76 531 625 Antisense
GAAGTTCTACCCGCGAAAGCAGTGA 377 335 647 Antisense
ACAGCAACTCTGAAATCCATCAAGG 384 107 679 Antisense
GCTCTGGAGAGCTTAGGATCCGGTC 539 299 739 Antisense
TCCGGTCAGGATAAAGTTCGTGCTC 270 593 757 Antisense
Sequence Source Affymetrix Proprietary Database