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[193034_at] probable GDP-mannose 4,6-dehydratase

Description F56H6.5 /REP_DB=WormBase Gene ID /WP=CE16133 /TR=SW:O45583 /GB=CAB04494.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=probable GDP-mannose 4,6-dehydratase
Cluster 6grp_total > 60      4grp_total > 48      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8
1 2 3 4 range
A 4.2
(-3)
A 		5.9
(3)
A 		5.5
(1.6)
A 		5.1
(0.2)
A 		2
B 2.3
(-3)
A 		5.6
(-0.5)
A 		10.1
(3)
A 		2.9
(-2.5)
A 		8
C 3.6
(-2.6)
A 		6.7
(1.9)
A 		7.5
(3)
A 		3.3
(-3)
A 		4
avr 3.4
(-3) 		6.1
(0.8) 		7.7
(3) 		3.8
(-2.4) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5
1 2 3 4 5 6 range
A 5
(1.9)
A 		4.1
(0.3)
A 		3.5
(-0.8)
A 		5.6
(3)
A 		3.3
(-1.2)
A 		2.3
(-3)
A 		3
B 3.1
(-1.2)
A 		5.5
(3)
A 		2.1
(-3)
A 		4
(0.4)
A 		2.5
(-2.3)
A 		2.8
(-1.8)
A 		3
C 3.7
(-1.3)
A 		3.5
(-1.5)
A 		7.2
(3)
A 		6.8
(2.5)
A 		3.1
(-2)
A 		2.3
(-3)
A 		5
avr 3.9
(-0.2) 		4.4
(0.8) 		4.3
(0.6) 		5.5
(3) 		3
(-2) 		2.5
(-3) 		3
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2
1 2 3 4 range
A 1.5
(3)
A 		1.3
(1.3)
A 		1.4
(2.1)
A 		0.8
(-3)
A 		1
B 0.7
(-2.6)
A 		1.4
(-0.2)
A 		2.3
(3)
A 		0.6
(-3)
A 		2
C 1.2
(-1.2)
A 		1.9
(0.9)
A 		2.6
(3)
A 		0.6
(-3)
A 		2
avr 1.1
(-1.3) 		1.5
(0.4) 		2.1
(3) 		0.7
(-3) 		1

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1
1 2 3 4 5 6 range
A 0.9
(-1)
A 		1.5
(3)
A 		0.8
(-1.7)
A 		1.4
(2.3)
A 		1
(-0.3)
A 		0.6
(-3)
A 		1
B 1.1
(-0.2)
A 		1.8
(3)
A 		0.5
(-3)
A 		1.1
(-0.2)
A 		1
(-0.7)
A 		1.1
(-0.2)
A 		1
C 1.4
(0.6)
A 		1.1
(-1.2)
A 		1.8
(3)
A 		1.4
(0.6)
A 		1
(-1.8)
A 		0.8
(-3)
A 		1
avr 1.1
(-0.4) 		1.5
(3) 		1
(-1.3) 		1.3
(1.3) 		1
(-1.3) 		0.8
(-3) 		1
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193034_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1676
Sequence Type Exemplar sequence
Representative Public ID F56H6.5 NCBI
Target Description F56H6.5 /REP_DB=WormBase Gene ID /WP=CE16133 /TR=SW:O45583 /GB=CAB04494.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=probable GDP-mannose 4,6-dehydratase
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_060705(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060705 NCBI Caenorhabditis elegans F56H6.5 (F56H6.5) mRNA, complete cds. 11/11 None
SNAP00000044655 ENSEMBL cdna:SNAP chromosome:CEL140:I:12300391:12302058:-1 11/11 None
GENEFINDER00000044670 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12300391:12302058:-1 11/11 None
F56H6.5 ENSEMBL cdna:known chromosome:CEL140:I:12300391:12302058:-1 gene:F56H6.5 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
chrI:12300321-12301989(-) 100.0 100.0
Public Domain and Genome References
Gene Title probable GDP-mannose 4,6-dehydratase
Ensembl F56H6.5
Entrez Gene 186416 Entrez gene
SwissProt O45583 EMBL-EBI
WormBase CE16133 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:247094_AT GDP-D-mannose 4,6-dehydratase, putative at
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
8446 GDP-mannose 4,6-dehydratase activity inferred from electronic annotation QuickGO AmiGO
16491 oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB04494 Hypothetical protein F56H6.5 [Caenorhabditis elegans] ref|NP_493106.1| F56H6.5 [Caenorhabditis elegans] sp|O45583|GMD2_CAEEL Probable GDP-mannose 4,6 dehydratase 2 (GDP-D-mannose dehydratase) (GMD) 0.0
blast CAE74082 Hypothetical protein CBG21737 [Caenorhabditis briggsae] 0.0
blast CAC42269 Hypothetical protein C53B4.7b [Caenorhabditis elegans] ref|NP_501564.1| C53B4.7b [Caenorhabditis elegans] sp|Q18801|GMD1_CAEEL Probable GDP-mannose 4,6 dehydratase 1 (GDP-D-mannose dehydratase) (GMD) 0.0
Sequence
Target Sequence 
>C. ELEGANS:193034_AT
tccccttatgcggtcgccaagatgtatggctattggattgtggtgaactatcgggaggcg
tataagatgtttgcttgtaatggaattctgttcaaccatgagagtccgagaagaggtgaa
acctttgtcacacgcaaaatcacccgatctgttgcaaaaatcagtcttcgccagcaagag
cacatcgagctcggcaacctgagtgctctccgagactggggccacgcgaaagaatacgtc
gaggcaatgtggagaatccttcaacaagacaccccagacgactttgtgattgccaccggg
aagcagttcagtgtccgcgagttctgcaatcttgcattcgcggaaatcggagagcagttg
gtttgggaaggcgaaggtgtcgatgaagttgggaagaatcaggatggagtggtgagggtg
aaggtcagcccgaagtactacagaccgactgaggtggagactttgttggggaatccggcg
aaggctaggaagacacttggttgggagcccaagattactgttccgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCCCCTTATGCGGTCGCCAAGATGT 207 597 574 Antisense
TCACACGCAAAATCACCCGATCTGT 135 627 701 Antisense
GTTGCAAAAATCAGTCTTCGCCAGC 378 439 724 Antisense
ATCGAGCTCGGCAACCTGAGTGCTC 324 37 757 Antisense
GGAGAATCCTTCAACAAGACACCCC 648 519 824 Antisense
AAGACACCCCAGACGACTTTGTGAT 450 153 839 Antisense
GCCACCGGGAAGCAGTTCAGTGTCC 295 279 865 Antisense
TTCAGTGTCCGCGAGTTCTGCAATC 129 689 880 Antisense
CTGCAATCTTGCATTCGCGGAAATC 365 235 897 Antisense
GAAGGTCAGCCCGAAGTACTACAGA 331 335 993 Antisense
GGGAGCCCAAGATTACTGTTCCGGA 207 493 1076 Antisense
Sequence Source Affymetrix Proprietary Database