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[190978_at] alcohol dehydrogenase

Description K12G11.3 /REP_DB=WormBase Gene ID /WP=CE12212 /TR=SW:Q17334 /GB=CAB04604.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=alcohol dehydrogenase
Cluster 6grp_highest_10_10 > 04      6grp_high1_10_10 > 41      4grp_highest_8_8 > 51      4grp_high_8_8 > 24      6grp_highest_nonorm > 18      6grp_total > 41      4grp_total > 47      6grp_cgc > 81      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8074
1 2 3 4 range
A 13336.3
(3)
P 		5262.2
(-3)
P 		6807.7
(-1.9)
P 		6711.4
(-1.9)
P 		8074
B 11649
(3)
P 		6311.4
(-3)
P 		6401.8
(-2.9)
P 		8344.9
(-0.7)
P 		5338
C 12323.6
(3)
P 		6604.7
(-3)
P 		7300.6
(-2.3)
P 		7357.4
(-2.2)
P 		5719
avr 12436.3
(3) 		6059.4
(-3) 		6836.7
(-2.3) 		7471.2
(-1.7) 		6377

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7729
1 2 3 4 5 6 range
A 15965.2
(0.3)
P 		16396.8
(0.7)
P 		18827.6
(3)
P 		16486.4
(0.8)
P 		14517.4
(-1.1)
P 		12508.1
(-3)
P 		6320
B 14778.2
(0.1)
P 		15996.4
(1.1)
P 		18127.8
(3)
P 		15281.7
(0.5)
P 		13840.9
(-0.7)
P 		11237.6
(-3)
P 		6890
C 14740
(-0)
P 		16568.7
(1.5)
P 		18422.1
(3)
P 		16048
(1.1)
P 		16063.2
(1.1)
P 		11098.3
(-3)
P 		7324
avr 15161.1
(0.1) 		16320.6
(1.1) 		18459.2
(3) 		15938.7
(0.8) 		14807.2
(-0.2) 		11614.7
(-3) 		6845
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3873
1 2 3 4 range
A 4855.7
(3)
P 		1142.3
(-2.8)
P 		1779.7
(-1.8)
P 		982.4
(-3)
P 		3873
B 3714.8
(3)
P 		1558.8
(-2.8)
P 		1483.5
(-3)
P 		1778.3
(-2.2)
P 		2231
C 4079.4
(3)
P 		1898.9
(-1.6)
P 		2544.5
(-0.2)
P 		1240.6
(-3)
P 		2839
avr 4216.6
(3) 		1533.3
(-2.6) 		1935.9
(-1.7) 		1333.8
(-3) 		2883

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2888
1 2 3 4 5 6 range
A 2943.1
(-3)
P 		5831.5
(3)
P 		4100.3
(-0.6)
P 		4181.3
(-0.4)
P 		4380.7
(-0)
P 		3045.3
(-2.8)
P 		2888
B 5142.1
(1.2)
P 		5324.5
(1.9)
P 		4402
(-1.7)
P 		4047.6
(-3)
P 		5623.4
(3)
P 		4190.4
(-2.5)
P 		1576
C 5463.5
(3)
P 		5055.6
(1.9)
P 		4688.7
(0.9)
P 		3227.3
(-3)
P 		5197.8
(2.3)
P 		3715.2
(-1.7)
P 		2236
avr 4516.2
(-0) 		5403.9
(3) 		4397
(-0.4) 		3818.7
(-2.4) 		5067.3
(1.8) 		3650.3
(-3) 		1754
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190978_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13474
Sequence Type Exemplar sequence
Representative Public ID K12G11.3 NCBI
Target Description K12G11.3 /REP_DB=WormBase Gene ID /WP=CE12212 /TR=SW:Q17334 /GB=CAB04604.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=alcohol 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,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_073590(11), U18780(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073590 NCBI Caenorhabditis elegans SOrbitol DeHydrogenase family member (sodh-1) (sodh-1) mRNA, complete cds. 11/11 None
U18780 NCBI Caenorhabditis elegans alcohol dehydrogenase mRNA, clone cm01d5, partial cds. 10/11 None
SNAP00000018966 ENSEMBL cdna:SNAP chromosome:CEL140:V:11890884:11892025:1 11/11 None
GENEFINDER00000018971 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:11890884:11892025:1 11/11 None
K12G11.3.3 ENSEMBL cdna:known chromosome:CEL140:V:11890456:11892161:1 gene:K12G11.3 11/11 None
K12G11.3.1 ENSEMBL cdna:known chromosome:CEL140:V:11890824:11892212:1 gene:K12G11.3 11/11 None
K12G11.3.2 ENSEMBL cdna:known chromosome:CEL140:V:11890836:11892286:1 gene:K12G11.3 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:11890883-11892025(+) 100.0 100.0
Public Domain and Genome References
Gene Title alcohol dehydrogenase
Gene Symbol sodh-1
Ensembl K12G11.3
Entrez Gene 179627 Entrez gene
SwissProt Q17334 EMBL-EBI
WormBase CE12212 Wormbase
Functional Annotations
Ortholog
ID Title Organism
YEAST_2:1772120_AT Mitochondrial alcohol dehydrogenase isozyme III; involved in the shuttling of mitochondrial NADH to the cytosol under anaerobic conditions and ethanol production Sc
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
4024 alcohol dehydrogenase activity, zinc-dependent inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB04604 Hypothetical protein K12G11.3 [Caenorhabditis elegans] ref|NP_505991.1| SOrbitol DeHydrogenase family member (sodh-1) [Caenorhabditis elegans] sp|Q17334|ADH1_CAEEL Alcohol dehydrogenase K12G11.3 0.0
blast CAE75274 Hypothetical protein CBG23239 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002085 EMBL-EBI Zinc-containing alcohol dehydrogenase superfamily 9.4E-103
Pfam IPR002085 EMBL-EBI Zinc-containing alcohol dehydrogenase superfamily 2.2E-57
Sequence
Target Sequence 
>C. ELEGANS:190978_AT
tcaacaaggataccaatctcgccgctgctgctccaattctctgtgcaggagtcacagtct
acaaggccctgaaggagtcgaacgttgctccaggacaaatcattgtgcttactggagccg
gaggtggtctcggatctcttgctattcaatatgcctgtgctatgggaatgagagttgtcg
caatggatcacggaagcaaagaagctcattgcaaaggacttggagctgaatggttcgtcg
atgcatttgaaactccagatattgtgtctcacattaccaaattgactgagggaggaccac
atggagttatcaactttgctgttgcaagaaaaccaatggaacaagctgttgaatacgtca
gaaagcgtggaaccgttgttttcgtcggtcttccaaaggattcaaaggttactttcgaca
ccactccattcatcttcaatgctatcacaatcaagggttcaatcgtaggatctcgtcttg
acgtagatgaagctatggaattcgttacccgcggaattgtcaaggttccattggagcttg
taaaactcgaagacgttccagctgtctacca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCAACAAGGATACCAATCTCGCCGC 12 631 437 Antisense
TGCTGCTCCAATTCTCTGTGCAGGA 175 583 462 Antisense
AGGAGTCACAGTCTACAAGGCCCTG 384 55 483 Antisense
GTCGAACGTTGCTCCAGGACAAATC 165 473 513 Antisense
ATCATTGTGCTTACTGGAGCCGGAG 310 31 535 Antisense
GGATCTCTTGCTATTCAATATGCCT 55 513 568 Antisense
GGTTCGTCGATGCATTTGAAACTCC 602 507 668 Antisense
GAAACTCCAGATATTGTGTCTCACA 608 357 685 Antisense
GGTTCAATCGTAGGATCTCGTCTTG 374 507 892 Antisense
AAGCTATGGAATTCGTTACCCGCGG 176 149 926 Antisense
TCGAAGACGTTCCAGCTGTCTACCA 292 601 983 Antisense
Sequence Source Affymetrix Proprietary Database