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[188893_at] dehydrogenase

Description F54F3.4 /REP_DB=WormBase Gene ID /WP=CE19894 /TR=Q93790 /GB=CAB04734.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=dehydrogenase
Cluster 6grp_highest_10_10 > 74      6grp_high1_10_10 > 46      4grp_highest_8_8 > 22      4grp_high_8_8 > 06      6grp_highest_nonorm > 67      6grp_total > 46      4grp_total > 01      6grp_highest_sub > Cu      6grp_high1_sub > Cu      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5397
1 2 3 4 range
A 1228.7
(-2.9)
P 		1122.7
(-3)
P 		1519.8
(-2.5)
P 		6390.4
(3)
P 		5268
B 1312
(-2.6)
P 		993.4
(-3)
P 		1497
(-2.4)
P 		5644.8
(3)
P 		4651
C 1205.6
(-2.8)
P 		1075.4
(-3)
P 		1740
(-2.1)
P 		5424.4
(3)
P 		4349
avr 1248.8
(-2.8) 		1063.8
(-3) 		1585.6
(-2.3) 		5819.9
(3) 		4756

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1467
1 2 3 4 5 6 range
A 2036.9
(1.8)
P 		1518
(-0.5)
P 		1675.6
(0.2)
P 		1209
(-1.9)
P 		975.9
(-3)
P 		2289.5
(3)
P 		1314
B 2443
(3)
P 		1889
(0.6)
P 		2082.5
(1.4)
P 		1180.9
(-2.5)
P 		1077.2
(-3)
P 		2212.3
(2)
P 		1366
C 2108.9
(2.9)
P 		1739.7
(1)
P 		1571.6
(0.1)
P 		1572.4
(0.1)
P 		979.8
(-3)
P 		2122.9
(3)
P 		1143
avr 2196.3
(2.9) 		1715.6
(0.5) 		1776.6
(0.8) 		1320.8
(-1.4) 		1011
(-3) 		2208.2
(3) 		1197
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 959
1 2 3 4 range
A 447.4
(-1.2)
P 		243.7
(-3)
P 		397.3
(-1.7)
P 		935.4
(3)
P 		692
B 418.4
(-1.9)
P 		245.3
(-3)
P 		346.9
(-2.4)
P 		1202.9
(3)
P 		958
C 399.1
(-2.1)
P 		309.2
(-3)
P 		606.4
(-0.1)
P 		914.6
(3)
P 		605
avr 421.6
(-1.8) 		266.1
(-3) 		450.2
(-1.5) 		1017.6
(3) 		752

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 556
1 2 3 4 5 6 range
A 375.5
(-1.2)
P 		539.9
(2.6)
P 		364.9
(-1.4)
P 		306.6
(-2.7)
P 		294.5
(-3)
P 		557.4
(3)
P 		263
B 850
(3)
P 		628.8
(0.5)
P 		505.7
(-0.8)
P 		312.8
(-3)
P 		437.7
(-1.6)
P 		824.9
(2.7)
P 		537
C 781.7
(3)
P 		530.8
(-0.2)
P 		400
(-1.9)
P 		316.2
(-3)
P 		317
(-3)
P 		710.7
(2.1)
P 		466
avr 669.1
(2.6) 		566.5
(1) 		423.5
(-1.3) 		311.9
(-3) 		349.7
(-2.4) 		697.7
(3) 		386
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188893_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14259
Sequence Type Exemplar sequence
Representative Public ID F54F3.4 NCBI
Target Description F54F3.4 /REP_DB=WormBase Gene ID /WP=CE19894 /TR=Q93790 /GB=CAB04734.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=dehydrogenase
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_073829(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073829 NCBI Caenorhabditis elegans F54F3.4 (dehydrogenase) mRNA, complete cds. 11/11 None
SNAP00000002937 ENSEMBL cdna:SNAP chromosome:CEL140:V:12925211:12926085:1 11/11 None
GENEFINDER00000002940 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12925211:12926085:1 11/11 None
F54F3.4 ENSEMBL cdna:known chromosome:CEL140:V:12925211:12926752:1 gene:F54F3.4 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:12925210-12926705(+) 100.0 100.0
Public Domain and Genome References
Gene Title dehydrogenase
Ensembl F54F3.4
Entrez Gene 179772 Entrez gene
SwissProt Q93790 EMBL-EBI
WormBase CE19894 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
8152 metabolism inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
16491 oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB01974 Hypothetical protein F54F3.4 [Caenorhabditis elegans] emb|CAB04734.1| Hypothetical protein F54F3.4 [Caenorhabditis elegans] ref|NP_506230.1| F54F3.4 [Caenorhabditis elegans] 1.0E-144
blast CAE64717 Hypothetical protein CBG09503 [Caenorhabditis briggsae] 1.0E-133
blast CAB01974 Hypothetical protein F54F3.4 [Caenorhabditis elegans] emb|CAB04734.1| Hypothetical protein F54F3.4 [Caenorhabditis elegans] ref|NP_506230.1| F54F3.4 [Caenorhabditis elegans] 1.0E-109
blast CAE64717 Hypothetical protein CBG09503 [Caenorhabditis briggsae] 1.0E-102
blast ABB17552 NADH-dependent retinal reductase [Oryctolagus cuniculus] 6.0E-63
Protein Domains
Database ID Description E-Value
Pfam IPR002198 EMBL-EBI Short-chain dehydrogenase/reductase SDR 5.2E-63
Pfam IPR002198 EMBL-EBI Short-chain dehydrogenase/reductase SDR 1.9E-50
Sequence
Target Sequence 
>C. ELEGANS:188893_AT
aagttgccggaattgctggccatattgcaagcactgatgatcagaagaaacttgttgatt
ttactcttcaaaagttcggaaaaattaatattcttgtgaataaccatggaattaacccag
catttggtcacattctcgaagtttcggatcaagtttgggataagctgtttgaggtaaatg
tgaaggctggattccaaatgacaaaacttgtacatccacatattgccaaagaaggtggtg
gagcaattatcttcaacgcctcgtattccgcctataaaagtccaccaggaattgctgcat
acggtgtgaccaagactactcttgttgggttaacaagggcattggcgatgggattggcca
aggataatattcgagttaatggtattgctcctggagtta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGTTGCCGGAATTGCTGGCCATAT 205 157 194 Antisense
GCTGGCCATATTGCAAGCACTGATG 668 293 208 Antisense
GAATTAACCCAGCATTTGGTCACAT 368 325 302 Antisense
TTGGTCACATTCTCGAAGTTTCGGA 111 709 317 Antisense
AACTTGTACATCCACATATTGCCAA 204 139 398 Antisense
GGAGCAATTATCTTCAACGCCTCGT 85 521 433 Antisense
GTATTCCGCCTATAAAAGTCCACCA 204 305 456 Antisense
GGAATTGCTGCATACGGTGTGACCA 443 533 481 Antisense
GTGACCAAGACTACTCTTGTTGGGT 132 483 499 Antisense
CAAGGGCATTGGCGATGGGATTGGC 109 183 527 Antisense
GTTAATGGTATTGCTCCTGGAGTTA 55 445 568 Antisense
Sequence Source Affymetrix Proprietary Database