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[193886_at] cyclin-dependent kinase regulatory subunit

Description C09G4.3 /REP_DB=WormBase Gene ID /WP=CE03980 /GEN=dom-6 /TR=SW:Q17868 /GB=AAF99866.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=cyclin-dependent kinase regulatory subunit
Cluster 6grp_highest_10_10 > 86      6grp_high1_10_10 > 67      4grp_highest_8_8 > 09      4grp_high_8_8 > 53      6grp_highest_nonorm > 96      6grp_total > 69      4grp_total > 58      6grp_highest_sub > Da      6grp_cgc > 39      6grp_high1_sub > Da      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 454
1 2 3 4 range
A 649.6
(-3)
P 		963.6
(2.1)
P 		1018
(3)
P 		662.4
(-2.8)
P 		368
B 845.1
(1.3)
P 		840.3
(1.3)
P 		953.1
(3)
P 		564.2
(-3)
P 		389
C 751.5
(-0.5)
P 		1006.3
(3)
P 		942.9
(2.1)
P 		570.8
(-3)
P 		436
avr 748.7
(-0.6) 		936.7
(2.4) 		971.3
(3) 		599.1
(-3) 		372

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1025
1 2 3 4 5 6 range
A 914.2
(-0.9)
P 		709.8
(-2.1)
P 		577.4
(-2.9)
P 		557.5
(-3)
P 		771.1
(-1.7)
P 		1580.9
(3)
P 		1023
B 819.3
(-1.3)
P 		698.9
(-2.1)
P 		581.1
(-2.8)
P 		556.4
(-3)
P 		842.8
(-1.1)
P 		1473.1
(3)
P 		917
C 881.9
(-0.9)
P 		643.8
(-3)
P 		677.6
(-2.7)
P 		691
(-2.6)
P 		724.5
(-2.3)
P 		1323.1
(3)
P 		679
avr 871.8
(-1.1) 		684.2
(-2.4) 		612
(-2.9) 		601.6
(-3) 		779.5
(-1.8) 		1459
(3) 		857
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 232
1 2 3 4 range
A 236.5
(1.9)
P 		209.2
(1)
P 		266.1
(3)
P 		97
(-3)
P 		169
B 269.5
(3)
P 		207.5
(0.5)
P 		220.9
(1)
P 		120.2
(-3)
P 		149
C 248.8
(0.9)
P 		289.3
(2)
P 		328.6
(3)
P 		96.2
(-3)
P 		232
avr 251.6
(2.3) 		235.3
(1.7) 		271.9
(3) 		104.5
(-3) 		167

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 424
1 2 3 4 5 6 range
A 168.5
(-2)
P 		252.4
(-0.1)
P 		125.8
(-3)
P 		141.4
(-2.6)
P 		232.7
(-0.5)
P 		384.9
(3)
P 		259
B 285.1
(-0.9)
P 		232.6
(-1.7)
P 		141.1
(-3)
P 		147.4
(-2.9)
P 		342.4
(-0)
P 		549.3
(3)
P 		408
C 326.9
(0.7)
P 		196.4
(-1.9)
P 		172.5
(-2.3)
P 		139
(-3)
P 		234.5
(-1.1)
P 		442.9
(3)
P 		304
avr 260.2
(-0.8) 		227.1
(-1.4) 		146.5
(-2.9) 		142.6
(-3) 		269.9
(-0.6) 		459
(3) 		316
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193886_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8383
Sequence Type Exemplar sequence
Representative Public ID C09G4.3 NCBI
Target Description C09G4.3 /REP_DB=WormBase Gene ID /WP=CE03980 /GEN=dom-6 /TR=SW:Q17868 /GB=AAF99866.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=cyclin-dependent kinase regulatory subunit
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_069056(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069056 NCBI Caenorhabditis elegans Downstream Of Mes (in same operon) family member (dom-6) (dom-6) mRNA, complete cds. 11/11 None
SNAP00000025642 ENSEMBL cdna:SNAP chromosome:CEL140:IV:8513405:8514330:1 11/11 None
GENEFINDER00000025652 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:8513932:8514330:1 11/11 None
C09G4.3 ENSEMBL cdna:known chromosome:CEL140:IV:8513910:8514641:1 gene:C09G4.3 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:8513937-8514336(+) 100.0 100.0
Public Domain and Genome References
Gene Title cyclin-dependent kinase regulatory subunit
Gene Symbol dom-6
Ensembl C09G4.3
Entrez Gene 177658 Entrez gene
SwissProt Q17868 EMBL-EBI
WormBase CE03980 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:20439_AT cyclin-dependent kinase, putative / CDK, putative at
ATH1-121501:264061_AT cyclin-dependent kinase, putative / CDK, putative at
CANINE:1583487_AT similar to Cyclin-dependent kinases regulatory subunit 1 (CKS-1) (Sid 1334) cfa
CANINE_2:CFA.279.1.A1_A_AT similar to Cyclin-dependent kinases regulatory subunit 1 (CKS-1) (Sid 1334) cfa
CANINE_2:CFAAFFX.26219.1.S1_S_AT similar to Cyclin-dependent kinases regulatory subunit 1 (CKS-1) (Sid 1334) cfa
CANINE_2:CFAAFFX.26219.1.S1_X_AT similar to Cyclin-dependent kinases regulatory subunit 1 (CKS-1) (Sid 1334) cfa
DROSOPHILA_2:1627770_AT Cyclin-dependent kinase subunit 30A dm
DROSGENOME1:153961_AT Cyclin-dependent kinase subunit 30A dm
HG-U133A:201897_S_AT CDC28 protein kinase regulatory subunit 1B hs
HG-FOCUS:201897_S_AT CDC28 protein kinase regulatory subunit 1B hs
HG-U133A_2:201897_S_AT CDC28 protein kinase regulatory subunit 1B hs
HG-U133_PLUS_2:201897_S_AT CDC28 protein kinase regulatory subunit 1B hs
HUGENEFL:X54941_AT CDC28 protein kinase regulatory subunit 1B hs
U133_X3P:G4502856_3P_A_AT CDC28 protein kinase regulatory subunit 1B hs
HG-U95AV2:37347_AT CDC28 protein kinase regulatory subunit 1B hs
MU11KSUBA:AA475191_S_AT CDC28 protein kinase 1b mm
MU11KSUBB:MSA.3970.0_S_AT CDC28 protein kinase 1b mm
MU11KSUBB:MSA.22178.0_F_AT CDC28 protein kinase 1b mm
MG-U74AV2:97468_AT CDC28 protein kinase 1b mm
MG-U74BV2:110665_I_AT CDC28 protein kinase 1b mm
MG-U74BV2:110666_R_AT CDC28 protein kinase 1b mm
MG-U74BV2:110664_G_AT CDC28 protein kinase 1b mm
MG-U74BV2:110663_AT CDC28 protein kinase 1b mm
MOE430A:1448441_AT CDC28 protein kinase 1b mm
MOUSE430A_2:1448441_AT CDC28 protein kinase 1b mm
MOUSE430_2:1448441_AT CDC28 protein kinase 1b mm
MOE430A:1416698_A_AT CDC28 protein kinase 1b mm
MOUSE430A_2:1416698_A_AT CDC28 protein kinase 1b mm
MOUSE430_2:1416698_A_AT CDC28 protein kinase 1b mm
MOE430B:1456268_AT CDC28 protein kinase 1b mm
MOUSE430_2:1456268_AT CDC28 protein kinase 1b mm
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7049 cell cycle inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4693 cyclin-dependent protein kinase activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF99866 Downstream of mes (in same operon) protein 6 [Caenorhabditis elegans] ref|NP_501457.1| Downstream Of Mes (in same operon) family member (dom-6) [Caenorhabditis elegans] sp|Q17868|CKS1_CAEEL Cyclin-dependent kinases regulatory subunit gb|AAC27123.1| cyclin kinase subunit [Caenorhabditis elegans] 4.0E-51
blast AAF99866 Downstream of mes (in same operon) protein 6 [Caenorhabditis elegans] ref|NP_501457.1| Downstream Of Mes (in same operon) family member (dom-6) [Caenorhabditis elegans] sp|Q17868|CKS1_CAEEL Cyclin-dependent kinases regulatory subunit gb|AAC27123.1| cyclin kinase subunit [Caenorhabditis elegans] 9.0E-51
blast CAE69444 Hypothetical protein CBG15632 [Caenorhabditis briggsae] 3.0E-41
blast CAE69444 Hypothetical protein CBG15632 [Caenorhabditis briggsae] 6.0E-41
blast AAF99868 Hypothetical protein C09G4.4 [Caenorhabditis elegans] ref|NP_001021319.1| C09G4.4 [Caenorhabditis elegans] gb|AAC27122.1| C09G4.4 gene product [Caenorhabditis elegans] 8.0E-28
blast BAB27540.1 unnamed protein product [Mus musculus] 6.0E-26
Protein Domains
Database ID Description E-Value
Pfam IPR000789 EMBL-EBI Cyclin-dependent kinase, regulatory subunit 9.8E-54
Pfam IPR000789 EMBL-EBI Cyclin-dependent kinase, regulatory subunit 9.8E-54
Sequence
Target Sequence 
>C. ELEGANS:193886_AT
gatgatgagttcgagtaccgtcacgttcatgtcaccaaggatgtttccaagcttatccca
aaaaatcgattgatgtccgaaacagagtggagaagtcttggaattcaacagtccccagga
tggatgcactacatgattcacggacccgagcgtcacgtgcttcttttccgcagaccattg
gcagctacacaaaaaaccggagga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGATGAGTTCGAGTACCGTCACG 279 409 58 Antisense
AGTTCGAGTACCGTCACGTTCATGT 268 65 65 Antisense
GTTCATGTCACCAAGGATGTTTCCA 234 445 82 Antisense
GATGTTTCCAAGCTTATCCCAAAAA 127 407 97 Antisense
AATCGATTGATGTCCGAAACAGAGT 522 163 121 Antisense
GTCTTGGAATTCAACAGTCCCCAGG 124 467 152 Antisense
ACAGTCCCCAGGATGGATGCACTAC 257 107 165 Antisense
GATGCACTACATGATTCACGGACCC 488 411 180 Antisense
TACATGATTCACGGACCCGAGCGTC 89 645 187 Antisense
TTCCGCAGACCATTGGCAGCTACAC 161 699 223 Antisense
GGCAGCTACACAAAAAACCGGAGGA 439 535 237 Antisense
Sequence Source Affymetrix Proprietary Database