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[189064_s_at] choline kinase

Description C28D4.2 /REP_DB=WormBase Gene ID /WP=CE20533 /TR=O17610 /GB=CAB05129.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=choline kinase
Cluster 6grp_highest_10_10 > 75      6grp_high1_10_10 > 57      4grp_highest_8_8 > 46      4grp_high_8_8 > 02      6grp_highest_nonorm > 86      6grp_total > 57      4grp_total > 14      6grp_highest_sub > Cu      6grp_cgc > 37      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1230
1 2 3 4 range
A 1639.7
(2.7)
P 		806
(-3)
P 		839.2
(-2.8)
P 		1682.1
(3)
P 		876
B 1602.5
(0.6)
P 		1009.8
(-2.8)
P 		965.9
(-3)
P 		2036.3
(3)
P 		1070
C 1719.9
(2.4)
P 		836
(-3)
P 		1005.5
(-2)
P 		1821.4
(3)
P 		985
avr 1654
(1.8) 		883.9
(-3) 		936.9
(-2.7) 		1846.6
(3) 		963

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1067
1 2 3 4 5 6 range
A 995.8
(0.3)
P 		831.8
(-1.6)
P 		853.8
(-1.4)
P 		714.1
(-3)
P 		772.2
(-2.3)
P 		1227.4
(3)
P 		513
B 1093.7
(1.4)
P 		777.9
(-2.9)
P 		970.4
(-0.3)
P 		771.1
(-3)
P 		781.3
(-2.9)
P 		1210
(3)
P 		439
C 1055.6
(-0.9)
P 		797.9
(-2.4)
P 		914.9
(-1.7)
P 		761.4
(-2.6)
P 		684.9
(-3)
P 		1752.2
(3)
P 		1067
avr 1048.4
(-0.2) 		802.5
(-2.5) 		913
(-1.5) 		748.9
(-3) 		746.1
(-3) 		1396.5
(3) 		650
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 422
1 2 3 4 range
A 597
(3)
P 		175
(-3)
P 		219.4
(-2.4)
P 		246.2
(-2)
P 		422
B 511
(3)
P 		249.4
(-2.5)
P 		223.8
(-3)
P 		433.9
(1.4)
P 		287
C 569.3
(3)
P 		240.4
(-3)
P 		350.4
(-1)
P 		307.1
(-1.8)
P 		329
avr 559.1
(3) 		221.6
(-3) 		264.5
(-2.2) 		329.1
(-1.1) 		338

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 434
1 2 3 4 5 6 range
A 183.6
(-2.9)
P 		295.8
(2.8)
P 		185.9
(-2.8)
P 		181.1
(-3)
P 		233
(-0.4)
P 		298.8
(3)
P 		118
B 380.5
(1.3)
P 		258.9
(-1.7)
P 		235.7
(-2.2)
P 		204.2
(-3)
P 		317.4
(-0.3)
P 		451.2
(3)
P 		247
C 391.3
(0.3)
P 		243.5
(-1.7)
P 		232.9
(-1.9)
P 		153.1
(-3)
P 		221.6
(-2.1)
P 		586.6
(3)
P 		434
avr 318.5
(0.1) 		266.1
(-1) 		218.2
(-2.1) 		179.5
(-3) 		257.3
(-1.2) 		445.5
(3) 		266
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 189064_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9770
Sequence Type Exemplar sequence
Representative Public ID C28D4.2 NCBI
Target Description C28D4.2 /REP_DB=WormBase Gene ID /WP=CE20533 /TR=O17610 /GB=CAB05129.1 /SUBMIT=HINXTON /CHR=4 /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_069331(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069331 NCBI Caenorhabditis elegans Choline Kinase A family member (cka-1) (cka-1) mRNA, complete cds. 11/11 None
SNAP00000030226 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9731993:9733903:-1 11/11 None
GENEFINDER00000030236 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9731993:9733903:-1 11/11 None
C28D4.2 ENSEMBL cdna:known chromosome:CEL140:IV:9731712:9737596:-1 gene:C28D4.2 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
chrIV:9731998-9737602(-) 100.0 100.0
Public Domain and Genome References
Gene Title choline kinase
Gene Symbol cka-1
Ensembl C28D4.2
Entrez Gene 177807 Entrez gene
SwissProt O17610 EMBL-EBI
WormBase CE20533 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:260244_AT choline kinase, putative at
CANINE_2:CFA.18544.1.S1_S_AT similar to Choline/ethanolamine kinase cfa
CANINE_2:CFAAFFX.1795.1.S1_AT similar to Choline/ethanolamine kinase cfa
HG-U133A:210069_AT choline kinase beta hs
HG-U133_PLUS_2:210069_AT choline kinase beta hs
HG-U133A_2:210069_AT choline kinase beta hs
HG-U133_PLUS_2:204193_AT choline kinase beta hs
HG-FOCUS:204193_AT choline kinase beta hs
HG-U133A:204193_AT choline kinase beta hs
HG-U133A_2:204193_AT choline kinase beta hs
HG-U133_PLUS_2:210070_S_AT choline kinase beta hs
HG-U133A_2:210070_S_AT choline kinase beta hs
HG-U133A:210070_S_AT choline kinase beta hs
HG-FOCUS:210070_S_AT choline kinase beta hs
HUGENEFL:U66828_S_AT choline kinase beta hs
HUGENEFL:U62317_RNA3_AT choline kinase beta hs
U133_X3P:G6978648_3P_AT choline kinase beta hs
U133_X3P:G1762532_3P_X_AT choline kinase beta hs
U133_X3P:G1762532_3P_A_AT choline kinase beta hs
HG-U95AV2:32033_AT choline kinase beta hs
HG-U95AV2:35935_AT choline kinase beta hs
HG-U95AV2:35936_G_AT choline kinase beta hs
HG-U95D:74575_AT choline kinase beta hs
MG-U74AV2:102027_S_AT choline kinase beta mm
MU11KSUBB:MSA.16277.0_S_AT choline kinase beta mm
MU11KSUBB:MSA.26559.0_S_AT choline kinase beta mm
MU11KSUBB:MSA.22972.0_F_AT choline kinase beta mm
MG-U74AV2:102026_S_AT choline kinase beta mm
MOE430A:1448448_A_AT choline kinase beta mm
MOUSE430A_2:1448448_A_AT choline kinase beta mm
MOUSE430_2:1448448_A_AT choline kinase beta mm
MU19KSUBA:TC15896_AT Choline kinase beta (Chkb), mRNA mm
MU19KSUBA:TC15897_AT Choline kinase beta (Chkb), mRNA mm
MU19KSUBA:TC18144_AT Choline kinase beta (Chkb), mRNA mm
RG-U34A:AB006607_AT choline kinase beta rn
RG-U34A:AB006607_G_AT choline kinase beta rn
RG-U34C:RC_AI229144_AT choline kinase beta rn
RAE230A:1367718_AT choline kinase beta rn
RAT230_2:1367718_AT choline kinase beta rn
Protein Similarities
Method ID Description E-Value
blast CAB05129 Hypothetical protein C28D4.2 [Caenorhabditis elegans] ref|NP_501732.1| Choline Kinase A family member (cka-1) [Caenorhabditis elegans] 0.0
blast CAE69007 Hypothetical protein CBG15000 [Caenorhabditis briggsae] 0.0
blast CAE68555 Hypothetical protein CBG14388 [Caenorhabditis briggsae] 9.0E-75
blast CAE68555 Hypothetical protein CBG14388 [Caenorhabditis briggsae] 1.0E-74
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:189064_S_AT
tttttccttcaacatagtcactcgccagttgtgttttcgcataatgatttacaggaagga
aatttcctgttgattgatggatataaacttgctgatgatggaaccgttctcacacctgat
ggaaaaccaacaaatgatgatccattgtcattaattgattttgagtactgtagttataat
tatagaggattcgatctaggaaatcatttctgtgaatatggttatgactataatgaggct
gaagctccatactataaaattcatcaacactatttcgaagtggaaaaagagagaaaagta
ttctgtgaggcatatctggatgaggtttacaagatgcgagcttgcggtgacaacccacat
ttcccctcggatctggttactggcgatcgggagaaagatcttaataagatcattgaagaa
tcgattctcttcatgccagtctctaatattttctgggtttgctggtctttaatcaatgct
gaagaatcctcgattgcattcgattacggtgcttatggacgtgatcgtcttgctctatac
ttccaccagaaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTTTCCTTCAACATAGTCACTCGC 262 675 853 Antisense
TCACTCGCCAGTTGTGTTTTCGCAT 126 627 870 Antisense
AACCGTTCTCACACCTGATGGAAAA 462 147 954 Antisense
AATGAGGCTGAAGCTCCATACTATA 399 163 1084 Antisense
AAGATGCGAGCTTGCGGTGACAACC 416 153 1183 Antisense
CCCTCGGATCTGGTTACTGGCGATC 313 259 1216 Antisense
TTCTCTTCATGCCAGTCTCTAATAT 87 693 1277 Antisense
ATATTTTCTGGGTTTGCTGGTCTTT 171 19 1298 Antisense
GAATCCTCGATTGCATTCGATTACG 676 327 1336 Antisense
TATGGACGTGATCGTCTTGCTCTAT 585 655 1366 Antisense
CTTGCTCTATACTTCCACCAGAAGA 215 219 1381 Antisense
Sequence Source Affymetrix Proprietary Database