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[189097_at]

Description C52B9.1 /REP_DB=WormBase Gene ID /WP=CE27113 /TR=Q22942 /GB=AAK39220.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=choline kinase
Cluster 6grp_highest_10_10 > 21      6grp_high1_10_10 > 22      4grp_highest_8_8 > 43      4grp_high_8_8 > 32      6grp_highest_nonorm > 70      6grp_total > 22      4grp_total > 47      6grp_highest_sub > De      6grp_cgc > 61      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 216
1 2 3 4 range
A 403.8
(3)
P 		215.7
(-3)
P 		279.4
(-1)
P 		229.2
(-2.6)
P 		188
B 358.6
(3)
P 		303.1
(-1.1)
P 		277.2
(-3)
P 		290
(-2.1)
P 		81
C 431.2
(3)
P 		254.8
(-3)
P 		288.1
(-1.9)
P 		297
(-1.6)
P 		176
avr 397.9
(3) 		257.9
(-3) 		281.6
(-2) 		272.1
(-2.4) 		140

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 214
1 2 3 4 5 6 range
A 300.3
(1.5)
P 		344.2
(3)
P 		301.7
(1.5)
P 		265.6
(0.2)
P 		235.2
(-0.8)
P 		172.8
(-3)
P 		171
B 386.8
(3)
P 		341.1
(1.5)
P 		353.9
(1.9)
P 		282.3
(-0.5)
P 		237.5
(-1.9)
P 		205.5
(-3)
P 		181
C 317.3
(2.2)
P 		321.7
(2.4)
P 		287.1
(0.9)
P 		335.4
(3)
P 		267.5
(0.1)
P 		194.3
(-3)
P 		141
avr 334.8
(3) 		335.7
(3) 		314.2
(2.1) 		294.4
(1.3) 		246.7
(-0.7) 		190.9
(-3) 		145
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 114
1 2 3 4 range
A 147
(3)
P 		46.8
(-2.3)
P 		73
(-0.9)
P 		33.5
(-3)
P 		114
B 114.4
(3)
P 		74.9
(-1.5)
P 		64.2
(-2.7)
P 		61.8
(-3)
P 		53
C 142.7
(3)
P 		73.3
(-1.5)
P 		100.4
(0.3)
P 		50.1
(-3)
P 		93
avr 134.7
(3) 		65
(-1.9) 		79.2
(-0.9) 		48.5
(-3) 		86

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 93
1 2 3 4 5 6 range
A 55.4
(-2)
P 		122.4
(3)
P 		65.7
(-1.2)
P 		67.4
(-1.1)
P 		71
(-0.8)
P 		42.1
(-3)
P 		80
B 134.6
(3)
P 		113.5
(0.9)
P 		85.9
(-1.9)
P 		74.8
(-3)
P 		96.5
(-0.8)
P 		76.6
(-2.8)
P 		60
C 117.6
(3)
P 		98.2
(0.8)
P 		73.1
(-2.1)
P 		67.5
(-2.7)
P 		86.6
(-0.5)
P 		65
(-3)
P 		53
avr 102.5
(1.9) 		111.4
(3) 		74.9
(-1.4) 		69.9
(-2) 		84.7
(-0.2) 		61.2
(-3) 		50
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189097_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16986
Sequence Type Exemplar sequence
Representative Public ID C52B9.1 NCBI
Target Description C52B9.1 /REP_DB=WormBase Gene ID /WP=CE27113 /TR=Q22942 /GB=AAK39220.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=choline kinase
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_001029309(11), NM_001029310(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029309 NCBI Caenorhabditis elegans Choline Kinase A family member (cka-2) (cka-2) mRNA, complete cds. 11/11 None
NM_001029310 NCBI Caenorhabditis elegans Choline Kinase A family member (cka-2) (cka-2) mRNA, complete cds. 11/11 None
SNAP00000014556 ENSEMBL cdna:SNAP chromosome:CEL140:X:4289463:4291335:1 11/11 None
GENEFINDER00000014571 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:4289463:4291335:1 11/11 None
C52B9.1 ENSEMBL cdna:known chromosome:CEL140:X:4286711:4291447:1 gene:C52B9.1 11/11 A 
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
chrX:4289439-4291302(+) 100.0 100.0
Public Domain and Genome References
Ensembl C52B9.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_001024480 Choline Kinase A family member (cka-2) [Caenorhabditis elegans] gb|AAK39220.1| Choline kinase a protein 2, isoform a [Caenorhabditis elegans] pdb|1NW1|B Chain B, Crystal Structure Of Choline Kinase pdb|1NW1|A Chain A, Crystal Structure Of Choline Kinase 0.0
blast CAE68555 Hypothetical protein CBG14388 [Caenorhabditis briggsae] 0.0
blast NP_001024481 Choline Kinase A family member (cka-2) [Caenorhabditis elegans] gb|AAX88835.1| Choline kinase a protein 2, isoform b [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002573 EMBL-EBI Choline/ethanolamine kinase 1.0E-126
Pfam IPR002573 EMBL-EBI Choline/ethanolamine kinase 1.0E-126
Pfam IPR002573 EMBL-EBI Choline/ethanolamine kinase 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:189097_AT
gatgcggaacatcgtttcgaccttcctgaagagtgtggagtttccagtgtcaattgtcta
gacttagcaagggagttggagtttctgagagctcatatctcactgagcaaaagccctgta
acattttgtcacaatgacttacaagaaggcaatattttacttccaaaagcttcttccggt
aacattcgtatgccttcgctatcggatgagactcaagcgttgggtaacagcttatcagca
ttcaacccagctgatcctcgtcttgtgctcattgattttgagtatgctagctacaactac
agagcattcgattttgccaatcacttcatcgaatggactattgactacgacattgacgaa
gctccattctacaaaattcaaaccgagaacttccccgaaaatgatcaaatgctcgaattc
ttcttgaactatcttcgcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGCGGAACATCGTTTCGACCTTC 498 411 568 Antisense
GGAGTTTCCAGTGTCAATTGTCTAG 546 517 604 Antisense
AAAGCCCTGTAACATTTTGTCACAA 94 121 677 Antisense
GCTTCTTCCGGTAACATTCGTATGC 539 305 736 Antisense
TTCGTATGCCTTCGCTATCGGATGA 342 695 752 Antisense
GCGTTGGGTAACAGCTTATCAGCAT 47 291 784 Antisense
TCAGCATTCAACCCAGCTGATCCTC 97 625 802 Antisense
CTCGTCTTGTGCTCATTGATTTTGA 571 231 824 Antisense
GATTTTGCCAATCACTTCATCGAAT 658 429 877 Antisense
GACATTGACGAAGCTCCATTCTACA 108 371 916 Antisense
GAATTCTTCTTGAACTATCTTCGCG 239 325 982 Antisense
Sequence Source Affymetrix Proprietary Database