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[192104_at] Spingomyelin phosphodiesterase

Description B0252.2 /REP_DB=WormBase Gene ID /WP=CE02418 /TR=Q10916 /GB=AAC46756.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Spingomyelin phosphodiesterase
Cluster 6grp_highest_10_10 > 12      6grp_high1_10_10 > 01      4grp_highest_8_8 > 47      4grp_high_8_8 > 11      6grp_highest_nonorm > 72      6grp_total > 08      4grp_total > 13      6grp_cgc > 20      6grp_high1_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 606
1 2 3 4 range
A 700
(0.8)
P 		572.2
(-0.9)
P 		411.5
(-3)
P 		866.2
(3)
P 		455
B 785.8
(0.5)
P 		540.6
(-2.1)
P 		458.7
(-3)
P 		1017.2
(3)
P 		559
C 689
(-1.1)
P 		617
(-2.1)
P 		551.2
(-3)
P 		978.9
(3)
P 		428
avr 724.9
(0.1) 		576.6
(-1.7) 		473.8
(-3) 		954.1
(3) 		480

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 188
1 2 3 4 5 6 range
A 453.9
(3)
P 		381.3
(-0.3)
P 		416.5
(1.3)
P 		389.2
(0.1)
P 		321.7
(-3)
P 		349.1
(-1.8)
P 		132
B 507.6
(3)
P 		348.6
(-2.5)
P 		451.7
(1.1)
P 		348
(-2.5)
P 		351.6
(-2.4)
P 		334.7
(-3)
P 		173
C 423.9
(3)
P 		373.4
(0.1)
P 		406.5
(2)
P 		418.6
(2.7)
P 		319.9
(-3)
P 		387.6
(0.9)
P 		104
avr 461.8
(3) 		367.8
(-1.3) 		424.9
(1.3) 		385.3
(-0.5) 		331.1
(-3) 		357.1
(-1.8) 		131
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 149
1 2 3 4 range
A 254.9
(3)
P 		124.2
(-2.3)
P 		107.6
(-3)
P 		126.8
(-2.2)
P 		147
B 250.6
(3)
P 		133.5
(-1.9)
P 		106.3
(-3)
P 		216.8
(1.6)
P 		144
C 228.1
(3)
P 		177.4
(-1.8)
P 		192.1
(-0.4)
P 		165.1
(-3)
P 		63
avr 244.5
(3) 		145
(-2.5) 		135.3
(-3) 		169.6
(-1.1) 		109

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 93
1 2 3 4 5 6 range
A 83.7
(-3)
P 		135.6
(3)
P 		90.7
(-2.2)
P 		98.7
(-1.3)
P 		97.1
(-1.5)
P 		85
(-2.8)
P 		52
B 176.6
(3)
P 		116
(-1.3)
P 		109.7
(-1.8)
P 		92.2
(-3)
P 		142.8
(0.6)
P 		124.8
(-0.7)
P 		84
C 157.1
(3)
P 		113.9
(-0.6)
P 		103.5
(-1.4)
P 		84.2
(-3)
P 		103.5
(-1.4)
P 		129.8
(0.8)
P 		73
avr 139.1
(3) 		121.8
(0.8) 		101.3
(-1.8) 		91.7
(-3) 		114.5
(-0.1) 		113.2
(-0.3) 		47
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192104_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5521
Sequence Type Exemplar sequence
Representative Public ID B0252.2 NCBI
Target Description B0252.2 /REP_DB=WormBase Gene ID /WP=CE02418 /TR=Q10916 /GB=AAC46756.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Spingomyelin 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_063014(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063014 NCBI Caenorhabditis elegans Acid SphingoMyelinase family member (asm-1) (asm-1) mRNA, complete cds. 11/11 None
SNAP00000013954 ENSEMBL cdna:SNAP chromosome:CEL140:II:6909890:6912505:1 11/11 None
GENEFINDER00000013964 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6910013:6912505:1 11/11 None
B0252.2 ENSEMBL cdna:known chromosome:CEL140:II:6910001:6912568:1 gene:B0252.2 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
chrII:6909885-6912501(+) 100.0 100.0
Public Domain and Genome References
Gene Title Spingomyelin phosphodiesterase
Gene Symbol asm-1
Ensembl B0252.2
Entrez Gene 174131 Entrez gene
SwissProt Q10916 EMBL-EBI
WormBase CE30230 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 AAC46756 Acid sphingomyelinase protein 1 [Caenorhabditis elegans] ref|NP_495415.2| Acid SphingoMyelinase family member (asm-1) [Caenorhabditis elegans] sp|Q10916|ASM1_CAEEL Sphingomyelin phosphodiesterase 1 precursor (Acid sphingomyelinase 1) 0.0
blast T15291 sphingomyelin phosphodiesterase (EC 3.1.4.12), acidic, B0252.2 precursor [similarity] - Caenorhabditis elegans 0.0
blast CAE65992 Hypothetical protein CBG11183 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004843 EMBL-EBI Metallo-phosphoesterase 9.5E-18
Pfam IPR004843 EMBL-EBI Metallo-phosphoesterase 9.5E-18
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000013954 1 21-43
Sequence
Target Sequence 
>C. ELEGANS:192104_AT
tacttgcacatattccacctggagattctgaatgtcttgaaggttgggcattcaattact
atcgagttattcagagattttcttctacgatagccgctcaattcttcggacatgatcatt
tggattactttacagttttctatgaggatatgcataacgtgtcgagtaaaccaataagtg
ttggatatgcttcaccttcggtaactacttttgagtatcaaaatcctgcatacagaatct
acgaaattgatccttataataaatttaaaatcgtcgacttcacaacttattacgccgatt
tggagaaagcaacggaggacaaaaagccggtgtgggagaagctgtattctgctcgacaag
cacatgggatggatgatctgtctccgctttcctggaacaaagttattcagaaacttttca
ccagcgaaaagaaacgagagaaattttatcaatacgcattccgaaacttctctccgcaat
gcgattccacgtgtcaaatgca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TACTTGCACATATTCCACCTGGAGA 47 645 1268 Antisense
GAGATTTTCTTCTACGATAGCCGCT 414 397 1341 Antisense
GATAGCCGCTCAATTCTTCGGACAT 254 425 1356 Antisense
GATATGCTTCACCTTCGGTAACTAC 537 425 1451 Antisense
GACTTCACAACTTATTACGCCGATT 286 371 1543 Antisense
GAAGCTGTATTCTGCTCGACAAGCA 565 341 1605 Antisense
TGGGATGGATGATCTGTCTCCGCTT 679 553 1632 Antisense
TGTCTCCGCTTTCCTGGAACAAAGT 703 555 1646 Antisense
CAATACGCATTCCGAAACTTCTCTC 163 181 1717 Antisense
GAAACTTCTCTCCGCAATGCGATTC 378 357 1730 Antisense
AATGCGATTCCACGTGTCAAATGCA 318 167 1745 Antisense
Sequence Source Affymetrix Proprietary Database