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[191512_at] serine palmitoyltransferase

Description T22G5.5 /REP_DB=WormBase Gene ID /WP=CE13990 /TR=Q9XVI6 /GB=CAB03390.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=serine palmitoyltransferase
Cluster 6grp_highest_10_10 > 12      6grp_high1_10_10 > 20      4grp_highest_8_8 > 36      4grp_high_8_8 > 0      6grp_highest_nonorm > 74      6grp_total > 40      4grp_total > 07      6grp_cgc > 35      6grp_cgc_sub > Cu      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 220
1 2 3 4 range
A 449
(3)
P 		336.7
(-3)
P 		411
(1)
P 		371.4
(-1.1)
P 		112
B 556.7
(3)
P 		351.2
(-3)
P 		471.2
(0.5)
P 		496.6
(1.2)
P 		206
C 545.9
(3)
P 		447.7
(-3)
P 		528.6
(1.9)
P 		512.2
(0.9)
P 		98
avr 517.2
(3) 		378.5
(-3) 		470.3
(1) 		460.1
(0.5) 		139

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 462
1 2 3 4 5 6 range
A 759.4
(2.5)
P 		686.4
(1)
P 		787.7
(3)
P 		773.2
(2.7)
P 		477.4
(-3)
P 		739.1
(2.1)
P 		310
B 599.1
(-2.4)
P 		723.3
(0.2)
P 		857.3
(3)
P 		673.8
(-0.8)
P 		569.8
(-3)
P 		649.7
(-1.3)
P 		288
C 939.8
(3)
P 		762.9
(0.6)
P 		787.3
(1)
P 		860.6
(1.9)
P 		490.7
(-3)
P 		691.8
(-0.3)
P 		449
avr 766.1
(2.1) 		724.2
(1.3) 		810.8
(3) 		769.2
(2.2) 		512.6
(-3) 		693.5
(0.6) 		298
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 130
1 2 3 4 range
A 163.5
(3)
P 		73.1
(-2)
P 		107.5
(-0.1)
P 		54.4
(-3)
P 		109
B 177.5
(3)
P 		86.7
(-3)
P 		109.2
(-1.5)
P 		105.8
(-1.7)
P 		91
C 180.7
(2.8)
P 		128.7
(-0.4)
P 		184.2
(3)
P 		86.4
(-3)
P 		98
avr 173.9
(3) 		96.2
(-2.1) 		133.6
(0.4) 		82.2
(-3) 		92

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 208
1 2 3 4 5 6 range
A 140
(-3)
P 		244.1
(3)
P 		171.5
(-1.2)
P 		196.1
(0.2)
P 		144.1
(-2.8)
P 		180
(-0.7)
P 		104
B 208.5
(-0.2)
P 		240.7
(2.8)
P 		208.2
(-0.2)
P 		178.5
(-3)
P 		231.5
(2)
P 		242.3
(3)
P 		64
C 348.3
(3)
P 		232.8
(-0.7)
P 		200.4
(-1.7)
P 		173.1
(-2.5)
P 		158.8
(-3)
P 		231.6
(-0.7)
P 		190
avr 232.3
(2.3) 		239.2
(3) 		193.4
(-1.5) 		182.6
(-2.6) 		178.1
(-3) 		218
(0.9) 		61
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191512_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12913
Sequence Type Exemplar sequence
Representative Public ID T22G5.5 NCBI
Target Description T22G5.5 /REP_DB=WormBase Gene ID /WP=CE13990 /TR=Q9XVI6 /GB=CAB03390.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=serine palmitoyltransferase
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_074044(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074044 NCBI Caenorhabditis elegans Serine Palmitoyl Transferase famiLy family member (sptl-3) (sptl-3) mRNA, complete cds. 11/11 None
SNAP00000016899 ENSEMBL cdna:SNAP chromosome:CEL140:V:13896002:13898625:1 11/11 None
GENEFINDER00000016901 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:13896002:13898726:1 11/11 None
T22G5.5.2 ENSEMBL cdna:known chromosome:CEL140:V:13895955:13898625:1 gene:T22G5.5 11/11 None
T22G5.5.1 ENSEMBL cdna:known chromosome:CEL140:V:13895992:13898994:1 gene:T22G5.5 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
chrV:13896001-13898625(+) 100.0 100.0
Public Domain and Genome References
Gene Title serine palmitoyltransferase
Gene Symbol sptl-3
Ensembl T22G5.5
Entrez Gene 179884 Entrez gene
SwissProt Q9XVI6 EMBL-EBI
WormBase CE31996 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
8152 metabolism inferred from electronic annotation QuickGO AmiGO
9058 biosynthesis inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8483 transaminase activity inferred from electronic annotation QuickGO AmiGO
16740 transferase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03390 Hypothetical protein T22G5.5 [Caenorhabditis elegans] ref|NP_506445.2| Serine Palmitoyl Transferase famiLy family member (sptl-3) [Caenorhabditis elegans] 0.0
blast CAE66206 Hypothetical protein CBG11447 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR004839 EMBL-EBI Aminotransferase, class I and II 3.6E-27
Pfam IPR004839 EMBL-EBI Aminotransferase, class I and II 3.6E-27
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_506445.2 1 35-57
T22G5.5.2 1 35-57
T22G5.5.1 1 35-57
SNAP00000016899 1 35-57
GENEFINDER00000016901 1 35-57
Sequence
Target Sequence 
>C. ELEGANS:191512_AT
gttatctgttccttgatgaagcacacagtatcggcgccgtagggcctagtggaagaggag
ttgccgagtattggggatgcaatccaagagatattgatattatgatgggtactctcacga
aatcatttgcatcggctggaggatatatgggaggatcaaagaaagtcatcgatcacattc
gtcgatactctgctggaacttgctacggagttacaatgtctccaccacttattgctcaag
tcgagagagcagttttgatcatgtctggaaaagatggtacagatattggccgacagaaag
caattcaactactcgaaaattctcgatacttcagaaaagagcttcgtaaacgaggatttt
tggtgtatggaaacaatgatagtccagttgttccattaatgacgttttatattacaaaag
ttgttgaattttcgcgaagaatgttgaaacataatattggaattgttgccgttggatatc
cggcaactccacttttggaagcacgtgttcggttctgtttgagtgccgatcacac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTATCTGTTCCTTGATGAAGCACA 404 447 971 Antisense
GGCGCCGTAGGGCCTAGTGGAAGAG 483 521 1003 Antisense
GGGTACTCTCACGAAATCATTTGCA 502 495 1077 Antisense
CGATCACATTCGTCGATACTCTGCT 530 247 1140 Antisense
GATACTCTGCTGGAACTTGCTACGG 116 425 1154 Antisense
ACGGAGTTACAATGTCTCCACCACT 539 95 1175 Antisense
CTCCACCACTTATTGCTCAAGTCGA 21 237 1190 Antisense
GATGGTACAGATATTGGCCGACAGA 402 407 1243 Antisense
TATCCGGCAACTCCACTTTTGGAAG 649 657 1447 Antisense
TTGGAAGCACGTGTTCGGTTCTGTT 510 707 1465 Antisense
GGTTCTGTTTGAGTGCCGATCACAC 216 507 1481 Antisense
Sequence Source Affymetrix Proprietary Database