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[173739_at] choline kinase

Description CEK104F9R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C28D4.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D72555 /WB_GENE_ID=C28D4.2 /WP=CE20533 /CHR=4 /FEA=Genomic Cluster /DEF=choline kinase; C.elegans cDNA clone yk104f9 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 85      6grp_high1_10_10 > 57      4grp_highest_8_8 > 30      4grp_high_8_8 > 04      6grp_highest_nonorm > 78      6grp_total > 58      4grp_total > 05      6grp_highest_sub > Cu      6grp_cgc > 28      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2533
1 2 3 4 range
A 1688.8
(-1.7)
P 		1293.4
(-3)
P 		1993.8
(-0.7)
P 		3126.3
(3)
P 		1833
B 2446.5
(-0.4)
P 		1623.5
(-2.4)
P 		1380.7
(-3)
P 		3826.8
(3)
P 		2446
C 2191.1
(-0.6)
P 		1565.9
(-3)
P 		1665.7
(-2.6)
P 		3133.7
(3)
P 		1568
avr 2108.8
(-1) 		1494.3
(-3) 		1680.1
(-2.4) 		3362.3
(3) 		1868

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1495
1 2 3 4 5 6 range
A 1886.3
(3)
P 		1214.9
(-1.4)
P 		1411.2
(-0.1)
P 		973.4
(-3)
P 		1502.5
(0.5)
P 		1809.1
(2.5)
P 		913
B 1932.7
(1.5)
P 		1275.1
(-2.9)
P 		1871.3
(1.1)
P 		1264.5
(-3)
P 		1346.9
(-2.4)
P 		2148
(3)
P 		884
C 1459.3
(-1)
P 		1291.8
(-1.7)
P 		957.9
(-3)
P 		1062.8
(-2.6)
P 		1136.8
(-2.3)
P 		2452.9
(3)
P 		1495
avr 1759.4
(0.8) 		1260.6
(-2.1) 		1413.5
(-1.2) 		1100.2
(-3) 		1328.7
(-1.7) 		2136.7
(3) 		1037
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 535
1 2 3 4 range
A 614.9
(3)
P 		280.8
(-3)
P 		521.2
(1.3)
P 		457.6
(0.2)
P 		334
B 780.2
(2.6)
P 		401
(-2)
P 		319.9
(-3)
P 		815.5
(3)
P 		496
C 725.3
(3)
P 		450.2
(-3)
P 		580.6
(-0.2)
P 		528.4
(-1.3)
P 		275
avr 706.8
(3) 		377.3
(-3) 		473.9
(-1.2) 		600.5
(1.1) 		330

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 607
1 2 3 4 5 6 range
A 347.7
(-0.1)
P 		432.1
(2.4)
P 		307.3
(-1.2)
P 		246.9
(-3)
P 		453.4
(3)
P 		440.4
(2.6)
P 		207
B 672.5
(1.3)
P 		424.4
(-1.8)
P 		454.4
(-1.5)
P 		334.9
(-3)
P 		547.2
(-0.3)
P 		801
(3)
P 		466
C 540.9
(0.2)
P 		394.2
(-1.2)
P 		243.8
(-2.7)
P 		213.7
(-3)
P 		367.8
(-1.5)
P 		821.1
(3)
P 		607
avr 520.4
(0.6) 		416.9
(-0.8) 		335.2
(-2) 		265.2
(-3) 		456.1
(-0.3) 		687.5
(3) 		422
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173739_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.24640
Sequence Type Exemplar sequence
Representative Public ID CEK104F9R NCBI
Target Description CEK104F9R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=C28D4.2 /5_PRIME_EXT_DB=WormBase Gene ID /GB=D72555 /WB_GENE_ID=C28D4.2 /WP=CE20533 /CHR=4 /FEA=Genomic Cluster /DEF=choline kinase; C.elegans cDNA clone yk104f9 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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
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:9731752-9737603(-) 99.7 100.0
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] 1.0E-74
Protein Domains
Database ID Description E-Value
Pfam IPR002573 EMBL-EBI Choline/ethanolamine kinase 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:173739_AT
ttgtgatctttataatgccatgcatttttaactatgtaaccttctcttaatctgctttta
aaaatttctaaccttttctcataattagggtttttatggtcaccaaagaaaattgtattt
taattgcactatactcctaatctatcactatgtttccaactacgccttgtgtgccttttg
tgataattccaatacgaaccctctgttttctcg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGTGATCTTTATAATGCCATGCAT 527 705 1433 Antisense
AATGCCATGCATTTTTAACTATGTA 2 167 1446 Antisense
AACTATGTAACCTTCTCTTAATCTG 434 139 1462 Antisense
TAACCTTCTCTTAATCTGCTTTTAA 692 637 1469 Antisense
ATTTCTAACCTTTTCTCATAATTAG 532 15 1496 Antisense
AATTGCACTATACTCCTAATCTATC 285 179 1554 Antisense
CTAATCTATCACTATGTTTCCAACT 335 227 1569 Antisense
TACGCCTTGTGTGCCTTTTGTGATA 339 649 1593 Antisense
TTGTGTGCCTTTTGTGATAATTCCA 377 707 1599 Antisense
GATAATTCCAATACGAACCCTCTGT 481 413 1614 Antisense
CCAATACGAACCCTCTGTTTTCTCG 126 275 1621 Antisense
Sequence Source Affymetrix Proprietary Database