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[190146_s_at] choline dehydrogenase

Description C34C6.4 /REP_DB=WormBase Gene ID /WP=CE03052 /TR=Q18429 /GB=CAA91263.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=choline dehydrogenase
Cluster 6grp_highest_10_10 > 12      6grp_high1_10_10 > 20      4grp_highest_8_8 > 33      4grp_high_8_8 > 58      6grp_highest_nonorm > 42      6grp_total > 40      4grp_total > 61      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 404
1 2 3 4 range
A 859.6
(3)
P 		683.8
(0.1)
P 		840.7
(2.7)
P 		496.7
(-3)
P 		363
B 593.9
(0.2)
P 		712.5
(3)
P 		667.7
(2)
P 		455.2
(-3)
P 		257
C 834.9
(3)
P 		654
(0.1)
P 		701.9
(0.9)
P 		461.8
(-3)
P 		373
avr 762.8
(3) 		683.4
(1.4) 		736.8
(2.5) 		471.2
(-3) 		292

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 408
1 2 3 4 5 6 range
A 788.8
(0.5)
P 		866.3
(1.7)
P 		875.1
(1.9)
P 		943.1
(3)
P 		578.1
(-3)
P 		743.4
(-0.3)
P 		365
B 861.5
(3)
P 		713.5
(-0.4)
P 		789.4
(1.3)
P 		777.9
(1.1)
P 		599.6
(-3)
P 		676.8
(-1.2)
P 		262
C 892.4
(1.4)
P 		768.9
(-0.8)
P 		985.6
(3)
P 		813.2
(0)
P 		640.6
(-3)
P 		648
(-2.9)
P 		345
avr 847.6
(2.2) 		782.9
(0.8) 		883.4
(3) 		844.7
(2.2) 		606.1
(-3) 		689.4
(-1.2) 		277
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 240
1 2 3 4 range
A 313
(3)
P 		148.4
(-1.1)
P 		219.8
(0.7)
P 		72.7
(-3)
P 		240
B 189.4
(3)
P 		176
(2.1)
P 		154.7
(0.7)
P 		97
(-3)
P 		92
C 276.4
(3)
P 		188
(0.3)
P 		244.6
(2)
P 		77.9
(-3)
P 		199
avr 259.6
(3) 		170.8
(-0) 		206.4
(1.2) 		82.5
(-3) 		177

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 185
1 2 3 4 5 6 range
A 145.4
(-3)
P 		308.1
(3)
P 		190.6
(-1.3)
P 		239.2
(0.5)
P 		174.5
(-1.9)
P 		181
(-1.7)
P 		163
B 299.7
(3)
P 		237.5
(-0.5)
P 		191.7
(-3)
P 		206
(-2.2)
P 		243.6
(-0.1)
P 		252.4
(0.4)
P 		108
C 330.8
(3)
P 		234.6
(-0.5)
P 		250.9
(0.1)
P 		163.5
(-3)
P 		207.3
(-1.4)
P 		216.9
(-1.1)
P 		167
avr 258.6
(2.8) 		260.1
(3) 		211.1
(-2.1) 		202.9
(-3) 		208.5
(-2.4) 		216.8
(-1.5) 		57
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190146_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3401
Sequence Type Exemplar sequence
Representative Public ID C34C6.4 NCBI
Target Description C34C6.4 /REP_DB=WormBase Gene ID /WP=CE03052 /TR=Q18429 /GB=CAA91263.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=choline 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_063445(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063445 NCBI Caenorhabditis elegans C34C6.4 (C34C6.4) mRNA, complete cds. 11/11 None
SNAP00000033104 ENSEMBL cdna:SNAP chromosome:CEL140:II:8696551:8698849:-1 11/11 None
GENEFINDER00000033112 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:8694891:8698849:-1 11/11 None
C34C6.4.2 ENSEMBL cdna:known chromosome:CEL140:II:8696512:8698858:-1 gene:C34C6.4 11/11 None
C34C6.4.1 ENSEMBL cdna:known chromosome:CEL140:II:8696512:8698851:-1 gene:C34C6.4 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
chrII:8696547-8698846(-) 100.0 100.0
Public Domain and Genome References
Gene Title choline dehydrogenase
Ensembl C34C6.4
Entrez Gene 174390 Entrez gene
SwissProt Q18429 EMBL-EBI
WormBase CE03052 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.13243.1.S1_S_AT similar to choline dehydrogenase cfa
CHICKEN:GGA.10498.1.S1_AT similar to choline dehydrogenase precursor gga
CHICKEN:GGA.10498.1.S1_S_AT similar to choline dehydrogenase precursor gga
CHICKEN:GGAAFFX.26483.1.S1_S_AT similar to choline dehydrogenase precursor gga
HG-U133_PLUS_2:231994_AT choline dehydrogenase hs
HG-U133B:231994_AT choline dehydrogenase hs
HU35KSUBB:RC_AA088689_AT choline dehydrogenase hs
U133_X3P:HS.146178.0.A1_3P_AT choline dehydrogenase hs
U133_X3P:HS.131668.1.S1_3P_S_AT choline dehydrogenase hs
HG-U133_PLUS_2:1559590_AT choline dehydrogenase hs
HG-U133_PLUS_2:1559591_S_AT choline dehydrogenase hs
HG-U133_PLUS_2:229502_AT choline dehydrogenase hs
HG-U133B:229502_AT choline dehydrogenase hs
HG-U95C:59987_AT choline dehydrogenase hs
HG-U95C:59988_AT choline dehydrogenase hs
HG-U95E:90517_AT choline dehydrogenase hs
HG-U133_PLUS_2:229954_AT Choline dehydrogenase hs
HG-U133B:229954_AT Choline dehydrogenase hs
HG-U133_PLUS_2:230484_AT Choline dehydrogenase hs
HG-U133B:230484_AT Choline dehydrogenase hs
HG-U95E:74652_AT Choline dehydrogenase hs
HG-U95E:88867_AT Choline dehydrogenase hs
HU35KSUBD:RC_C20981_AT Choline dehydrogenase hs
U133_X3P:HS.126688.0.A1_3P_AT Choline dehydrogenase hs
U133_X3P:HS.131668.0.A1_3P_AT Choline dehydrogenase hs
MG-U74CV2:135315_AT Choline dehydrogenase, mRNA (cDNA clone MGC:30702 IMAGE:3979709) mm
MU19KSUBC:TC41508_AT Choline dehydrogenase, mRNA (cDNA clone MGC:30702 IMAGE:3979709) mm
RG-U34A:X94769CDS_AT choline dehydrogenase rn
RG-U34C:RC_AI136972_AT choline dehydrogenase rn
RAE230B:1377666_AT choline dehydrogenase rn
RAT230_2:1377666_AT choline dehydrogenase rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
16491 oxidoreductase activity inferred from electronic annotation QuickGO AmiGO
16614 oxidoreductase activity, acting on CH-OH group of donors inferred from electronic annotation QuickGO AmiGO
50660 FAD binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA91263 Hypothetical protein C34C6.4 [Caenorhabditis elegans] ref|NP_495846.1| C34C6.4 [Caenorhabditis elegans] 0.0
blast CAE65943 Hypothetical protein CBG11120 [Caenorhabditis briggsae] 0.0
blast XP_414335 PREDICTED: similar to choline dehydrogenase precursor [Gallus gallus] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000172 EMBL-EBI Glucose-methanol-choline oxidoreductase 7.2E-117
Pfam IPR007867 EMBL-EBI GMC oxidoreductase 4.6E-69
Sequence
Target Sequence 
>C. ELEGANS:190146_S_AT
gatacggttacacatcctgatattcaattccactttttaccatctacagtacacgatgat
ggtagaaccaatggaacttgtcatggttatcaggtccatgttggtccaatgcggtctcaa
tcgaaaggatacataatgttacaagccaaggatcctcgccgtgctccaatcatcaatccg
aactatatggaagaagattcagattggcgagaattccgtaaatgtatccgagtgtctcgt
gaacttttcgcatcaaaagcgtttgacgaattcagaggaaaggagttggctcctggacca
gattgccaatcagatgctgatattgatcgatttgttaaagaaaaagcagcatcagcatat
catccatcatgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATACGGTTACACATCCTGATATTC 700 421 1210 Antisense
TCAATTCCACTTTTTACCATCTACA 45 635 1233 Antisense
GGAACTTGTCATGGTTATCAGGTCC 481 529 1282 Antisense
ATCAGGTCCATGTTGGTCCAATGCG 349 29 1298 Antisense
GGTCCAATGCGGTCTCAATCGAAAG 20 503 1312 Antisense
ATGTTACAAGCCAAGGATCCTCGCC 634 47 1345 Antisense
TGCTCCAATCATCAATCCGAACTAT 300 581 1371 Antisense
GAATTCCGTAAATGTATCCGAGTGT 129 323 1420 Antisense
TCCGAGTGTCTCGTGAACTTTTCGC 18 595 1436 Antisense
GAGTTGGCTCCTGGACCAGATTGCC 543 397 1492 Antisense
AGCATCAGCATATCATCCATCATGT 589 77 1557 Antisense
Sequence Source Affymetrix Proprietary Database