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[187991_s_at]

Description B0336.9 /REP_DB=WormBase Gene ID /WP=CE24765 /GEN=swp-1 /TR=Q17484 /GB=AAK18860.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 94      6grp_high1_10_10 > 58      4grp_highest_8_8 > 53      4grp_high_8_8 > 17      6grp_highest_nonorm > 83      6grp_total > 48      4grp_total > 31      6grp_highest_sub > Cu      6grp_cgc > 18      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 378
1 2 3 4 range
A 612.4
(3)
P 		353.9
(-1.6)
P 		276
(-3)
P 		519.4
(1.3)
P 		336
B 646.2
(3)
P 		312.1
(-2.3)
P 		270.3
(-3)
P 		479.2
(0.3)
P 		376
C 588.5
(3)
P 		268.3
(-3)
P 		335.7
(-1.7)
P 		443.1
(0.3)
P 		320
avr 615.7
(3) 		311.4
(-2.7) 		294
(-3) 		480.6
(0.5) 		322

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 337
1 2 3 4 5 6 range
A 509.8
(1.1)
P 		566.1
(2.1)
P 		289
(-3)
P 		475.5
(0.5)
P 		473.4
(0.4)
P 		613.1
(3)
P 		324
B 484.5
(0.9)
P 		448
(-0)
P 		331.2
(-3)
P 		401.9
(-1.2)
P 		378.2
(-1.8)
P 		568.1
(3)
P 		237
C 565.3
(1.3)
P 		492.8
(-0.8)
P 		442.9
(-2.3)
P 		421.2
(-2.9)
P 		417.7
(-3)
P 		625.9
(3)
P 		208
avr 519.9
(1) 		502.3
(0.6) 		354.4
(-3) 		432.9
(-1.1) 		423.1
(-1.3) 		602.4
(3) 		248
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 160
1 2 3 4 range
A 223
(3)
P 		76.8
(-2.8)
P 		72.1
(-3)
P 		76
(-2.8)
P 		151
B 206.1
(3)
P 		77.1
(-2.4)
P 		62.6
(-3)
P 		102.1
(-1.3)
P 		144
C 194.8
(3)
P 		77.1
(-2.9)
P 		117
(-0.9)
P 		74.7
(-3)
P 		120
avr 208
(3) 		77
(-3) 		83.9
(-2.7) 		84.3
(-2.7) 		131

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 149
1 2 3 4 5 6 range
A 94
(-1.7)
P 		201.3
(3)
P 		62.9
(-3)
P 		120.6
(-0.5)
P 		142.8
(0.5)
P 		149.3
(0.7)
P 		138
B 168.6
(1)
P 		149.1
(0.1)
P 		80.4
(-3)
P 		106.5
(-1.8)
P 		153.7
(0.3)
P 		211.8
(3)
P 		131
C 209.5
(3)
P 		150.4
(0.2)
P 		112.7
(-1.7)
P 		84.7
(-3)
P 		135.2
(-0.6)
P 		209.5
(3)
P 		125
avr 157.4
(1.1) 		166.9
(1.7) 		85.3
(-3) 		103.9
(-1.9) 		143.9
(0.4) 		190.2
(3) 		105
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187991_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6331
Sequence Type Exemplar sequence
Representative Public ID B0336.9 NCBI
Target Description B0336.9 /REP_DB=WormBase Gene ID /WP=CE24765 /GEN=swp-1 /TR=Q17484 /GB=AAK18860.1 /SUBMIT=ST.LOUIS /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_001025951(11), NM_001025949(11), NM_171132(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001025951 NCBI Caenorhabditis elegans splicing factor (Suppressor of White aPricot) related family member (swp-1) (swp-1) mRNA, complete cds. 11/11 None
NM_001025949 NCBI Caenorhabditis elegans splicing factor (Suppressor of White aPricot) related family member (swp-1) (swp-1) mRNA, complete cds. 11/11 None
NM_171132 NCBI Caenorhabditis elegans splicing factor (Suppressor of White aPricot) related family member (swp-1) (swp-1) mRNA, complete cds. 11/11 A 
GENEFINDER00000008885 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:5702273:5705410:-1 11/11 None
SNAP00000008876 ENSEMBL cdna:SNAP chromosome:CEL140:III:5702292:5705410:-1 11/11 None
B0336.9b.1 ENSEMBL cdna:known chromosome:CEL140:III:5702219:5704676:-1 gene:B0336.9 11/11 A 
B0336.9d ENSEMBL cdna:known chromosome:CEL140:III:5702292:5705410:-1 gene:B0336.9 11/11 A 
B0336.9a ENSEMBL cdna:known chromosome:CEL140:III:5702292:5705313:-1 gene:B0336.9 11/11 A 
B0336.9b.2 ENSEMBL cdna:known chromosome:CEL140:III:5702292:5705407:-1 gene:B0336.9 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
175795 5 3 NM_001025949 172000_x_at (9), 187991_s_at (11)
NM_001025951 172000_x_at (9), 187991_s_at (11)
NM_171132 172000_x_at (9), 187991_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:5702290-5705312(-) 100.0 100.0
Public Domain and Genome References
Ensembl B0336.9
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM75380 Splicing factor (suppressor of white apricot) related protein 1, isoform d [Caenorhabditis elegans] ref|NP_001021122.1| splicing factor (Suppressor of White aPricot) related family member (swp-1) [Caenorhabditis elegans] 0.0
blast T15336 hypothetical protein B0336.9 - Caenorhabditis elegans 0.0
blast AAM75378 Splicing factor (suppressor of white apricot) related protein 1, isoform a [Caenorhabditis elegans] ref|NP_741149.1| splicing factor (Suppressor of White aPricot) related family member (swp-1) [Caenorhabditis elegans] sp|Q10580|SWAP_CAEEL SWAP protein (Suppressor of white apricot protein homolog) gb|AAA64937.1| CeSWAP 0.0
blast AAL50323 Splicing factor (suppressor of white apricot) related protein 1, isoform b [Caenorhabditis elegans] ref|NP_001021120.1| splicing factor (Suppressor of White aPricot) related family member (swp-1) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000061 EMBL-EBI SWAP/Surp 8.0E-20
Pfam IPR000061 EMBL-EBI SWAP/Surp 0.019
Pfam IPR000061 EMBL-EBI SWAP/Surp 8.0E-20
Pfam IPR000061 EMBL-EBI SWAP/Surp 0.019
Pfam IPR000061 EMBL-EBI SWAP/Surp 8.0E-20
Pfam IPR000061 EMBL-EBI SWAP/Surp 0.019
Sequence
Target Sequence 
>C. ELEGANS:187991_S_AT
gtttccgatttgatccggatctggatgaaactgcaggaccttcagacacaactgcaaact
tcagtgatattagtggcctattccctccaccaacacctcctgtaatcccaccatccactc
aaatgcaagtcgatcggaaggaaaaagcgagaattttcatggagaagttgcttcaagaga
agaaagcaaagaaattacaagaagaagaagaacgatcaaaattagaggaagagacacgga
agaaggctgaaaagatatcagaatcattgtcagaacggaaaaatactggtagatcggatc
ggagagaagaagcacccaaaggggcgagatctctcgatgaaataattaataataggatca
acagtttgctatccgaatctggttttgaacccgttgaggagatgaagagaacagacgagg
atagggagagaaaaagacatcgaaaacgaagccgttcacgacgacgatctcgctcctgta
gccccagagaccgatcacgagagcacaaaaaatcccgaaaatccggtagacatcatcgat
ctcgctctcgttcctcatccagagatcgtca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTTCCGATTTGATCCGGATCTGGA 706 447 1646 Antisense
ACTGCAGGACCTTCAGACACAACTG 554 97 1675 Antisense
TGATATTAGTGGCCTATTCCCTCCA 562 563 1710 Antisense
CCACCATCCACTCAAATGCAAGTCG 289 273 1753 Antisense
GCACCCAAAGGGGCGAGATCTCTCG 381 315 1957 Antisense
GATCAACAGTTTGCTATCCGAATCT 518 421 2001 Antisense
GCTATCCGAATCTGGTTTTGAACCC 11 301 2013 Antisense
AAACGAAGCCGTTCACGACGACGAT 448 125 2089 Antisense
CCCCAGAGACCGATCACGAGAGCAC 315 259 2127 Antisense
TCCGGTAGACATCATCGATCTCGCT 257 591 2167 Antisense
CTCGTTCCTCATCCAGAGATCGTCA 366 233 2192 Antisense
Sequence Source Affymetrix Proprietary Database