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[193983_at] Domain found in NIK1-like kinases, mouse citron and yeast ROM1, ROM2

Description W02B8.2 /REP_DB=WormBase Gene ID /WP=CE20131 /TR=Q9XVH4 /GB=CAB03458.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Domain found in NIK1-like kinases, mouse citron and yeast ROM1, ROM2
Cluster 6grp_total > 48      4grp_total > 63      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 56
1 2 3 4 range
A 31.4
(0.3)
A 		17.2
(-3)
A 		42.8
(3)
A 		39.6
(2.3)
A 		26
B 65.8
(3)
A 		44.4
(0.7)
A 		31.6
(-0.7)
A 		9.7
(-3)
A 		56
C 32.9
(0.3)
A 		16
(-2.2)
A 		51.7
(3)
A 		10.2
(-3)
A 		42
avr 43.4
(3) 		25.9
(-1.4) 		42
(2.6) 		19.8
(-3) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 112
1 2 3 4 5 6 range
A 70.3
(3)
A 		10.8
(-2.5)
A 		5.6
(-3)
A 		33.5
(-0.4)
A 		10.2
(-2.6)
A 		60.5
(2.1)
A 		65
B 43.3
(2.6)
A 		13.6
(-2.5)
A 		17.1
(-1.9)
A 		13.4
(-2.5)
A 		10.6
(-3)
A 		45.8
(3)
A 		35
C 117.1
(3)
A 		10.9
(-2.8)
A 		8.5
(-3)
A 		10.6
(-2.8)
A 		7.8
(-3)
A 		47.6
(-0.8)
A 		109
avr 76.9
(3) 		11.8
(-2.8) 		10.4
(-2.9) 		19.2
(-2.1) 		9.5
(-3) 		51.3
(0.7) 		67
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 19
1 2 3 4 range
A 11.4
(3)
A 		3.7
(-3)
A 		11.2
(2.8)
A 		5.8
(-1.4)
A 		8
B 21
(3)
A 		11
(-0.2)
A 		7.3
(-1.3)
A 		2.1
(-3)
A 		19
C 10.9
(0.4)
A 		4.6
(-1.9)
A 		18
(3)
A 		1.7
(-3)
A 		16
avr 14.4
(3) 		6.4
(-1.3) 		12.2
(1.8) 		3.2
(-3) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 42
1 2 3 4 5 6 range
A 13
(2.2)
A 		3.9
(-1.8)
A 		1.2
(-3)
A 		8.5
(0.2)
A 		3.1
(-2.2)
A 		14.7
(3)
A 		14
B 15
(2.1)
A 		4.5
(-2.6)
A 		4.1
(-2.8)
A 		3.6
(-3)
A 		4.3
(-2.7)
A 		17.1
(3)
A 		14
C 43.4
(3)
A 		3.3
(-2.8)
A 		2.2
(-3)
A 		2.1
(-3)
A 		2.5
(-2.9)
A 		15.9
(-1)
A 		41
avr 23.8
(3) 		3.9
(-2.6) 		2.5
(-3) 		4.7
(-2.4) 		3.3
(-2.8) 		15.9
(0.8) 		21
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193983_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2779
Sequence Type Exemplar sequence
Representative Public ID W02B8.2 NCBI
Target Description W02B8.2 /REP_DB=WormBase Gene ID /WP=CE20131 /TR=Q9XVH4 /GB=CAB03458.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Domain found in NIK1-like kinases, mouse citron and yeast ROM1, ROM2
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_064513(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_064513 NCBI Caenorhabditis elegans W02B8.2 (W02B8.2) mRNA, complete cds. 11/11 None
SNAP00000004891 ENSEMBL cdna:SNAP chromosome:CEL140:II:13908817:13915011:1 11/11 None
GENEFINDER00000004898 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:13908817:13915011:1 11/11 None
W02B8.2 ENSEMBL cdna:known chromosome:CEL140:II:13908817:13915083:1 gene:W02B8.2 11/11 None
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
chrII:13908813-13915008(+) 100.0 100.0
Public Domain and Genome References
Gene Title Domain found in NIK1-like kinases, mouse citron and yeast ROM1, ROM2
Ensembl W02B8.2
Entrez Gene 175043 Entrez gene
SwissProt Q9XVH4 EMBL-EBI
WormBase CE20131 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
7242 intracellular signaling cascade inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5083 small GTPase regulator activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB03458 Hypothetical protein W02B8.2 [Caenorhabditis elegans] ref|NP_496914.1| W02B8.2 [Caenorhabditis elegans] 0.0
blast AAK31526 Hypothetical protein F59A6.5 [Caenorhabditis elegans] ref|NP_494921.1| F59A6.5 [Caenorhabditis elegans] 0.0
blast CAE61028 Hypothetical protein CBG04771 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
scop a.2.5.Prefoldin All alpha proteins; Long alpha-hairpin; Prefoldin; Prefoldin 2.59999990463257
scop a.4.5.LysR-like transcriptional regulators All alpha proteins; DNA/RNA-binding 3-helical bundle; "Winged helix" DNA-binding domain; LysR-like transcriptional regulators 0.949999988079071
Pfam IPR001180 EMBL-EBI Citron-like 5.6E-91
Pfam IPR001849 EMBL-EBI Pleckstrin-like 1.9E-10
Sequence
Target Sequence 
>C. ELEGANS:193983_AT
tcttgttggtttctgatgatactcagttgcatataaggaagtataattcaacaagagatg
tttttgctcactttgcgaaactcgttgtccctgagccagtctccttcatcgaaagtaccc
ctgctggcttcatcttcgcatcggacaccttctactacgtcccactggatcaccaatccc
catcggacgtgtccgcacggaagctgatgcctccacgccggtcggattatcccgtcagtg
cgcacgcaatcaccgccaacgaaatcctgctggcctaccagaatcacggaatctttgtga
acctttacggcgaacaatccagaaaccagatcatcgagtgggagaagatgccgatcgagt
ttgcctacacctcaccgcttctctatatagttcat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTTGTTGGTTTCTGATGATACTCA 655 615 3155 Antisense
AGATGTTTTTGCTCACTTTGCGAAA 21 67 3210 Antisense
CTTTGCGAAACTCGTTGTCCCTGAG 578 223 3225 Antisense
CCAGTCTCCTTCATCGAAAGTACCC 157 271 3250 Antisense
GGACGTGTCCGCACGGAAGCTGATG 689 523 3339 Antisense
TCACCGCCAACGAAATCCTGCTGGC 694 625 3404 Antisense
TCCTGCTGGCCTACCAGAATCACGG 678 593 3419 Antisense
GGAATCTTTGTGAACCTTTACGGCG 495 531 3442 Antisense
GAACCTTTACGGCGAACAATCCAGA 414 323 3453 Antisense
GAGAAGATGCCGATCGAGTTTGCCT 432 391 3496 Antisense
CTCACCGCTTCTCTATATAGTTCAT 256 229 3525 Antisense
Sequence Source Affymetrix Proprietary Database