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[188870_s_at]

Description ZC416.8B /REP_DB=WormBase Gene ID /WP=CE17308 /GEN=cha-1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=choline acetyltransferase
Cluster 6grp_highest_10_10 > 41      6grp_high1_10_10 > 15      4grp_high_8_8 > 17      6grp_highest_nonorm > 80      6grp_total > 05      4grp_total > 30      6grp_highest_sub > De      6grp_cgc > 32      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 177
1 2 3 4 range
A 253.4
(3)
P 		158.2
(-0.6)
P 		93.2
(-3)
P 		232.8
(2.2)
P 		160
B 270.4
(3)
P 		121.2
(-2.2)
P 		97
(-3)
M 		180.2
(-0.1)
P 		173
C 251.2
(3)
P 		121.8
(-3)
A 		123.3
(-2.9)
P 		142.3
(-2)
P 		129
avr 258.3
(3) 		133.7
(-1.9) 		104.5
(-3) 		185.1
(0.1) 		154

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 188
1 2 3 4 5 6 range
A 229.3
(3)
P 		189.6
(0.9)
P 		157.6
(-0.7)
P 		142
(-1.6)
P 		143.4
(-1.5)
P 		114.5
(-3)
P 		115
B 271
(3)
P 		225.5
(1)
P 		158.7
(-1.9)
P 		134.7
(-3)
P 		163.3
(-1.7)
P 		166.4
(-1.6)
P 		136
C 226.8
(1)
P 		290.1
(3)
P 		171.7
(-0.8)
P 		214
(0.6)
P 		165
(-1)
P 		102.4
(-3)
P 		188
avr 242.4
(3) 		235.1
(2.6) 		162.7
(-1.2) 		163.6
(-1.1) 		157.2
(-1.5) 		127.8
(-3) 		115
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 70
1 2 3 4 range
A 92.3
(3)
P 		34.3
(-2.1)
P 		24.4
(-3)
P 		34.1
(-2.1)
P 		68
B 86.2
(3)
P 		29.9
(-2.3)
P 		22.5
(-3)
M 		38.4
(-1.5)
P 		64
C 83.1
(3)
P 		35
(-1.9)
A 		43
(-1.1)
P 		24
(-3)
P 		59
avr 87.2
(3) 		33.1
(-2.7) 		30
(-3) 		32.2
(-2.8) 		57

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 66
1 2 3 4 5 6 range
A 42.3
(-0.8)
P 		67.4
(3)
P 		34.3
(-2)
P 		36
(-1.8)
P 		43.3
(-0.7)
P 		27.9
(-3)
P 		40
B 94.3
(3)
P 		75
(1)
P 		38.5
(-2.7)
P 		35.7
(-3)
P 		66.4
(0.1)
P 		62.1
(-0.3)
P 		59
C 84.1
(2.5)
P 		88.5
(3)
P 		43.7
(-2)
P 		43
(-2)
P 		53.4
(-0.9)
P 		34.3
(-3)
P 		54
avr 73.6
(2.5) 		77
(3) 		38.8
(-2.9) 		38.2
(-3) 		54.4
(-0.5) 		41.4
(-2.5) 		39
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188870_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10927
Sequence Type Exemplar sequence
Representative Public ID ZC416.8B NCBI
Target Description ZC416.8B /REP_DB=WormBase Gene ID /WP=CE17308 /GEN=cha-1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=choline acetyltransferase
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_001028432(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028432 NCBI Caenorhabditis elegans UNCoordinated family member (unc-17) (unc-17) mRNA, complete cds. 11/11 None
SNAP00000026351 ENSEMBL cdna:SNAP chromosome:CEL140:IV:3614049:3632550:-1 11/11 None
GENEFINDER00000026360 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:3613818:3617770:-1 11/11 None
ZC416.8b ENSEMBL cdna:known chromosome:CEL140:IV:3613927:3624692:-1 gene:ZC416.8 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
177124 2 1 NM_001028431 172038_x_at (11), 192428_s_at (11), 194229_x_at (11)
NM_001028432 172037_x_at (11), 188870_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:3614054-3617776(-) 99.95 100.0
Public Domain and Genome References
Ensembl ZC416.8
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_001023603 UNCoordinated family member (unc-17) [Caenorhabditis elegans] gb|AAB88370.1| Abnormal choline acetyltransferase protein 1, isoform b [Caenorhabditis elegans] sp|P32756|CLAT_CAEEL Choline O-acetyltransferase (CHOACTase) (Choline acetylase) (ChAT) gb|AAA53660.1| choline acetyltransferase gb|AAA53659.1| choline acetyltransferase 0.0
blast CAE63768 Hypothetical protein CBG08305 [Caenorhabditis briggsae] 0.0
blast NP_001023602 UNCoordinated family member (unc-17) [Caenorhabditis elegans] gb|AAB88371.1| Uncoordinated protein 17, isoform a [Caenorhabditis elegans] sp|P34711|UNC17_CAEEL Vesicular acetylcholine transporter unc-17 (Uncoordinated protein 17) gb|AAC14456.1| acetylcholine transporter [Caenorhabditis elegans] gb|AAC13764.1| UNC-17 0.0
blast CAD44849 choline-o-acetyltransferase [Echinococcus multilocularis] 2.0E-96
Protein Domains
Database ID Description E-Value
Pfam IPR000542 EMBL-EBI Acyltransferase ChoActase/COT/CPT 1.0E-126
Pfam IPR000542 EMBL-EBI Acyltransferase ChoActase/COT/CPT 1.0E-126
Pfam IPR000542 EMBL-EBI Acyltransferase ChoActase/COT/CPT 1.0E-104
Pfam IPR000542 EMBL-EBI Acyltransferase ChoActase/COT/CPT 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
SNAP00000026351 11 39-61,134-156,163-185,200-222,229-247,267-289,309-331,341-361,368-390,405-427,432-454
GENEFINDER00000026360 1 612-634
Sequence
Target Sequence 
>C. ELEGANS:188870_S_AT
attggcgtgtcagtccggatggatttattcagttgattatgcaattggcgcattataaaa
cacatggtcacctcgtttccacctacgaatcagcttcggttcggcgattcggtgcgggaa
gagttgataacattcgggcgaacacacaagaggcgctggaatgggttacggcaatggcga
gcaagaaggagtctaaagagagaaagctggaattatttaagaaggctgtgctcaagcagg
tcaaggtcacgttggagaacatcagcggctacggtgtcgacaatcatctttgcgccctat
tctgtctcgcccgggaaagggaagaaacgaccggagaagatataccatcactgtttctgg
atcctctgtggtctgaagttatgcgattcccattgtcgacaagccaagtcacaacctctc
tggatatccctgattgctacctgacgtatggtgcagtggtccgcgatggctatggatgcc
cgtacaatattcaaccggatcgagtgatttttgcgccgactgcgttcagaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTGGCGTGTCAGTCCGGATGGATT 387 3 1283 Antisense
GAATCAGCTTCGGTTCGGCGATTCG 538 327 1369 Antisense
GAACATCAGCGGCTACGGTGTCGAC 412 351 1539 Antisense
ACGGTGTCGACAATCATCTTTGCGC 60 97 1553 Antisense
TATTCTGTCTCGCCCGGGAAAGGGA 160 659 1580 Antisense
TTTCTGGATCCTCTGTGGTCTGAAG 130 671 1636 Antisense
GTTATGCGATTCCCATTGTCGACAA 408 447 1660 Antisense
CAAGTCACAACCTCTCTGGATATCC 22 185 1687 Antisense
TGACGTATGGTGCAGTGGTCCGCGA 273 571 1724 Antisense
TGGTCCGCGATGGCTATGGATGCCC 225 553 1739 Antisense
ATTTTTGCGCCGACTGCGTTCAGAA 432 15 1789 Antisense
Sequence Source Affymetrix Proprietary Database