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[192194_s_at] sphingomyelin phosphodiesterase

Description W03G1.7 /REP_DB=WormBase Gene ID /WP=CE17285 /TR=Q9UAY4 /GB=AAD14755.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=sphingomyelin phosphodiesterase
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 41      6grp_highest_nonorm > 42      6grp_total > 31      4grp_total > 54      6grp_highest_sub > 03      6grp_cgc > 81      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1043
1 2 3 4 range
A 1067.2
(3)
P 		510.5
(-0.2)
P 		436.9
(-0.6)
P 		24.3
(-3)
A 		1043
B 1031.5
(3)
P 		476.2
(-0.3)
P 		442.3
(-0.5)
P 		29.3
(-3)
A 		1002
C 1034.9
(3)
P 		542.6
(-0.1)
P 		383.6
(-1.1)
P 		81.7
(-3)
A 		953
avr 1044.5
(3) 		509.8
(-0.2) 		420.9
(-0.7) 		45.1
(-3) 		999

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1230
1 2 3 4 5 6 range
A 571.7
(-0.7)
P 		925.4
(1.1)
P 		1299.8
(3)
P 		608.6
(-0.5)
P 		430
(-1.4)
P 		104.9
(-3)
P 		1195
B 627
(-0.5)
P 		900.9
(0.9)
P 		1334.2
(3)
P 		894
(0.8)
P 		392.5
(-1.6)
P 		112.8
(-3)
P 		1221
C 582.5
(-0.6)
P 		887.8
(0.9)
P 		1308.7
(3)
P 		840.7
(0.7)
P 		444.7
(-1.3)
P 		104.3
(-3)
P 		1204
avr 593.7
(-0.6) 		904.7
(1) 		1314.2
(3) 		781.1
(0.3) 		422.4
(-1.4) 		107.3
(-3) 		1207
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 385
1 2 3 4 range
A 388.6
(3)
P 		110.8
(-1.3)
P 		114.2
(-1.3)
P 		3.6
(-3)
A 		385
B 328.9
(3)
P 		117.6
(-0.9)
P 		102.5
(-1.2)
P 		6.2
(-3)
A 		323
C 342.6
(3)
P 		156
(-0.4)
P 		133.7
(-0.8)
P 		13.8
(-3)
A 		329
avr 353.4
(3) 		128.1
(-0.9) 		116.8
(-1.1) 		7.9
(-3) 		346

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 308
1 2 3 4 5 6 range
A 105.4
(-1.4)
P 		329.1
(3)
P 		283.1
(2.1)
P 		154.4
(-0.5)
P 		129.8
(-0.9)
P 		25.5
(-3)
P 		304
B 218.2
(0.7)
P 		299.9
(2.5)
P 		324
(3)
P 		236.8
(1.1)
P 		159.5
(-0.5)
P 		42.1
(-3)
P 		282
C 215.9
(0.6)
P 		270.9
(1.7)
P 		333.1
(3)
P 		169.1
(-0.3)
P 		143.9
(-0.8)
P 		34.9
(-3)
P 		298
avr 179.8
(0.1) 		300
(2.7) 		313.4
(3) 		186.8
(0.3) 		144.4
(-0.6) 		34.2
(-3) 		279
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192194_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10495
Sequence Type Exemplar sequence
Representative Public ID W03G1.7 NCBI
Target Description W03G1.7 /REP_DB=WormBase Gene ID /WP=CE17285 /TR=Q9UAY4 /GB=AAD14755.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=sphingomyelin phosphodiesterase
Cluster Evidence This cluster is supported by a 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_067539(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067539 NCBI Caenorhabditis elegans Acid SphingoMyelinase family member (asm-3) (asm-3) mRNA, complete cds. 11/11 None
SNAP00000041681 ENSEMBL cdna:SNAP chromosome:CEL140:IV:520286:527540:-1 11/11 None
GENEFINDER00000041690 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:520286:523739:-1 11/11 None
W03G1.7 ENSEMBL cdna:known chromosome:CEL140:IV:520224:523739:-1 gene:W03G1.7 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:520285-523739(-) 100.0 100.0
Public Domain and Genome References
Gene Title sphingomyelin phosphodiesterase
Gene Symbol asm-3
Ensembl W03G1.7
Entrez Gene 176879 Entrez gene
SwissProt Q9UAY4 EMBL-EBI
WormBase CE31626 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
16787 hydrolase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAD14755 Acid sphingomyelinase protein 3 [Caenorhabditis elegans] ref|NP_499940.2| Acid SphingoMyelinase family member (asm-3) [Caenorhabditis elegans] sp|Q9UAY4|ASM3_CAEEL Putative sphingomyelin phosphodiesterase asm-3 precursor 0.0
blast T34001 sphingomyelin phosphodiesterase (EC 3.1.4.12), acidic, W03G1.7 [similarity] - Caenorhabditis elegans 0.0
blast CAE58466 Hypothetical protein CBG01606 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004843 EMBL-EBI Metallo-phosphoesterase 2.5E-10
Pfam IPR004843 EMBL-EBI Metallo-phosphoesterase 9.3E-7
Pfam IPR004843 EMBL-EBI Metallo-phosphoesterase 1.7E-8
Sequence
Target Sequence 
>C. ELEGANS:192194_S_AT
aaccaaactgacccagatggcacccttcaatggctcatcaaccagctccaagatgcagaa
aatgttggagacaaggtacatatcgttgcacatatccctggatccgacggagaagctctt
gaaggatatgctctaaactattataagattatcaatcggttagtttcaaaagttagaaga
gaacaagtaatcgactatgaggaatggttcttcaacttgacatccaacaatgcgaatcca
acaaatgtgaaatgggaagtactctatcaaagtgccaacatggaatatggtcttaaagga
caaatcccgacggagtataatcaaatgattgagagaatgaagactgatgatagtcttttc
aacaaatattacgaaaaccacaatcgtcgttcgatctacgatggtcgcgcgccatgcaac
gatcaacaatgtcgaaacggttatctttgcgacgcccgtcaattccatcagacccagcag
ctgtgtaccgatttggagggaggaattcagaagccggagcccaaaaaaaataagtattct
gcacgatttgccacatca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACCAAACTGACCCAGATGGCACCC 521 145 1012 Antisense
GGTACATATCGTTGCACATATCCCT 81 505 1086 Antisense
CATATCCCTGGATCCGACGGAGAAG 348 213 1102 Antisense
GAATGGTTCTTCAACTTGACATCCA 413 333 1213 Antisense
GTCGTTCGATCTACGATGGTCGCGC 478 473 1397 Antisense
GCGCCATGCAACGATCAACAATGTC 553 287 1420 Antisense
TCGAAACGGTTATCTTTGCGACGCC 576 551 1443 Antisense
TTCCATCAGACCCAGCAGCTGTGTA 160 699 1474 Antisense
GCAGCTGTGTACCGATTTGGAGGGA 145 315 1488 Antisense
GGAGGAATTCAGAAGCCGGAGCCCA 637 515 1510 Antisense
GTATTCTGCACGATTTGCCACATCA 391 453 1545 Antisense
Sequence Source Affymetrix Proprietary Database