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[187899_s_at]

Description F39H2.4 /REP_DB=WormBase Gene ID /WP=CE17814 /GEN=syp-3 /TR=O62238 /GB=CAB03087.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 87      4grp_high_8_8 > 15      6grp_total > 87      4grp_total > 08      6grp_cgc > 59      6grp_high1_sub > In      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 85
(-1.9)
P 		75.4
(-3)
P 		91.7
(-1.1)
P 		126
(3)
A 		51
B 79.8
(-1.7)
A 		68.8
(-3)
A 		82.3
(-1.4)
P 		119.4
(3)
P 		51
C 67
(-3)
P 		89.9
(0.6)
A 		93.3
(1.1)
P 		105.7
(3)
P 		39
avr 77.3
(-3) 		78
(-2.9) 		89.1
(-1.2) 		117
(3) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 718
1 2 3 4 5 6 range
A 78.3
(-2.8)
A 		62.1
(-3)
P 		59
(-3)
P 		197.8
(-1.4)
P 		365.5
(0.6)
P 		573.6
(3)
P 		515
B 82.2
(-2.9)
P 		66.2
(-3)
P 		88.5
(-2.8)
P 		160.8
(-2.2)
P 		394.3
(-0.1)
P 		748.3
(3)
P 		682
C 70.2
(-3)
P 		98.3
(-2.8)
P 		73.5
(-3)
P 		184.5
(-2)
P 		343.6
(-0.7)
P 		776.5
(3)
P 		706
avr 76.9
(-3) 		75.5
(-3) 		73.7
(-3) 		181
(-2) 		367.8
(-0.2) 		699.5
(3) 		626
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 31
(3)
P 		16.4
(-3)
P 		24
(0.1)
P 		18.4
(-2.2)
A 		15
B 25.4
(2.9)
A 		17
(-3)
A 		19.1
(-1.5)
P 		25.5
(3)
P 		9
C 22.2
(-1.2)
P 		25.8
(0.3)
A 		32.5
(3)
P 		17.8
(-3)
P 		15
avr 26.2
(3) 		19.7
(-3) 		25.2
(2.1) 		20.6
(-2.2) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 266
1 2 3 4 5 6 range
A 14.4
(-2.9)
A 		22.1
(-2.6)
P 		12.8
(-3)
P 		50.2
(-1.2)
P 		110.3
(1.6)
P 		139.7
(3)
P 		127
B 28.6
(-2.8)
P 		22
(-3)
P 		21.5
(-3)
P 		42.6
(-2.5)
P 		160.2
(0.2)
P 		279
(3)
P 		258
C 26
(-2.8)
P 		30
(-2.7)
P 		18.7
(-3)
P 		37.1
(-2.5)
P 		111.2
(-0.7)
P 		259.9
(3)
P 		241
avr 23
(-2.8) 		24.7
(-2.8) 		17.7
(-3) 		43.3
(-2.3) 		127.2
(0.2) 		226.2
(3) 		209
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187899_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1584
Sequence Type Exemplar sequence
Representative Public ID F39H2.4 NCBI
Target Description F39H2.4 /REP_DB=WormBase Gene ID /WP=CE17814 /GEN=syp-3 /TR=O62238 /GB=CAB03087.1 /SUBMIT=HINXTON /CHR=1 /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_059944(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059944 NCBI Caenorhabditis elegans SYnaPsis in meiosis abnormal family member (syp-3) (syp-3) mRNA, complete cds. 11/11 None
SNAP00000006546 ENSEMBL cdna:SNAP chromosome:CEL140:I:8671359:8672239:-1 11/11 None
GENEFINDER00000006549 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:8671359:8672239:-1 11/11 None
F39H2.4 ENSEMBL cdna:known chromosome:CEL140:I:8671244:8672066:-1 gene:F39H2.4 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
chrI:8671289-8671997(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol syp-3
Ensembl F39H2.4
Entrez Gene 172667 Entrez gene
SwissProt O62238 EMBL-EBI
WormBase CE17814 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB03087 Hypothetical protein F39H2.4 [Caenorhabditis elegans] ref|NP_492345.1| SYnaPsis in meiosis abnormal family member (syp-3) [Caenorhabditis elegans] 2.0E-99
blast CAB03087 Hypothetical protein F39H2.4 [Caenorhabditis elegans] ref|NP_492345.1| SYnaPsis in meiosis abnormal family member (syp-3) [Caenorhabditis elegans] 3.0E-99
blast CAE74498 Hypothetical protein CBG22249 [Caenorhabditis briggsae] 7.0E-56
blast CAE74498 Hypothetical protein CBG22249 [Caenorhabditis briggsae] 4.0E-46
Sequence
Target Sequence 
>C. ELEGANS:187899_S_AT
gaagccgaaacttcattcaccgagcgaattgctgaagacagggttaaatgtgctgctcaa
cgagaaagtctagaaagacagcttcaggatttgacagcaactgacaataaactgtctgaa
cagaaaagagactgggaagagagacaagaaaaagcctatgatgaactaatgtcttatttg
gaaaacgaggatgtggacagtgcgggtacacagttcggagatcacttcaattcattaatt
aaatcgatgaacaacttgtcacatgattcgatgaatggtcaattcaattcactcaaaaac
aatctggatgaattaaacattgaaaagaaacaactagaagtcgccatcgctgatcaatca
tcgactatttctgaaatgattccttctctccgtccaacatgtggagcgacctacaaagag
cgcaacactcttcgcattattttccattatcaagttgccaaactgcgcagtga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGCCGAAACTTCATTCACCGAGC 268 345 40 Antisense
GACAGGGTTAAATGTGCTGCTCAAC 665 365 76 Antisense
GGACAGTGCGGGTACACAGTTCGGA 310 525 234 Antisense
GTTCGGAGATCACTTCAATTCATTA 313 443 252 Antisense
ACAACTAGAAGTCGCCATCGCTGAT 409 107 369 Antisense
CGCCATCGCTGATCAATCATCGACT 326 257 381 Antisense
TTCTGAAATGATTCCTTCTCTCCGT 308 693 408 Antisense
TTCTCTCCGTCCAACATGTGGAGCG 615 691 423 Antisense
AGAGCGCAACACTCTTCGCATTATT 251 69 456 Antisense
ACTCTTCGCATTATTTTCCATTATC 275 101 466 Antisense
ATCAAGTTGCCAAACTGCGCAGTGA 179 27 488 Antisense
Sequence Source Affymetrix Proprietary Database