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[192379_at] Zinc finger, C4 type (two domains)

Description K06B4.8 /REP_DB=WormBase Gene ID /WP=CE11796 /TR=O45664 /GB=CAB05759.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_total > 26      4grp_total > 04      6grp_cgc > 43      6grp_cgc_sub > 02      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 147
1 2 3 4 range
A 17.8
(-2.5)
A 		11
(-2.8)
A 		6.2
(-3)
A 		152.5
(3)
A 		146
B 57.1
(3)
A 		5.9
(-3)
A 		7.7
(-2.8)
A 		38.8
(0.9)
A 		51
C 28
(-2)
A 		24.6
(-2.3)
A 		15.5
(-3)
A 		92.5
(3)
A 		77
avr 34.3
(-1.3) 		13.8
(-2.7) 		9.8
(-3) 		94.6
(3) 		85

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23
1 2 3 4 5 6 range
A 7
(-0.4)
A 		4.8
(-1.7)
A 		7.5
(-0.1)
A 		13
(3)
A 		2.5
(-3)
A 		4
(-2.1)
A 		11
B 8.5
(-0.1)
A 		13.1
(3)
A 		4.1
(-3)
A 		6.5
(-1.4)
A 		8.3
(-0.2)
A 		11.1
(1.7)
A 		9
C 18.2
(0.9)
A 		25.8
(3)
A 		4.5
(-2.9)
A 		5.9
(-2.6)
A 		4.3
(-3)
A 		5
(-2.8)
A 		22
avr 11.2
(0.9) 		14.6
(3) 		5.4
(-2.8) 		8.5
(-0.8) 		5
(-3) 		6.7
(-1.9) 		10
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 21
1 2 3 4 range
A 6.5
(-1.6)
A 		2.4
(-2.8)
A 		1.6
(-3)
A 		22.3
(3)
A 		21
B 18.2
(3)
A 		1.5
(-3)
A 		1.8
(-2.9)
A 		8.3
(-0.6)
A 		17
C 9.3
(-0.7)
A 		7.1
(-2)
A 		5.4
(-3)
A 		15.6
(3)
A 		10
avr 11.3
(1) 		3.7
(-2.6) 		2.9
(-3) 		15.4
(3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7
1 2 3 4 5 6 range
A 1.3
(-1.8)
A 		1.7
(-0.8)
A 		1.6
(-1.1)
A 		3.3
(3)
A 		0.8
(-3)
A 		1
(-2.5)
A 		3
B 3
(0.5)
A 		4.4
(3)
A 		1
(-3)
A 		1.7
(-1.8)
A 		3.4
(1.2)
A 		4.2
(2.6)
A 		3
C 6.8
(2)
A 		7.9
(3)
A 		1.1
(-3)
A 		1.2
(-2.9)
A 		1.4
(-2.7)
A 		1.7
(-2.5)
A 		7
avr 3.7
(1.3) 		4.7
(3) 		1.2
(-3) 		2.1
(-1.5) 		1.9
(-1.8) 		2.3
(-1.1) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192379_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13748
Sequence Type Exemplar sequence
Representative Public ID K06B4.8 NCBI
Target Description K06B4.8 /REP_DB=WormBase Gene ID /WP=CE11796 /TR=O45664 /GB=CAB05759.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
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_074502(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074502 NCBI Caenorhabditis elegans K06B4.8 (K06B4.8) mRNA, complete cds. 11/11 None
SNAP00000010512 ENSEMBL cdna:SNAP chromosome:CEL140:V:15696578:15698801:1 11/11 None
K06B4.8 ENSEMBL cdna:known chromosome:CEL140:V:15696578:15698801:1 gene:K06B4.8 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
chrV:15696577-15698801(+) 90.6 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-198
Ensembl K06B4.8
Entrez Gene 187056 Entrez gene
SwissProt O45664 EMBL-EBI
WormBase CE35584 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
4879 ligand-dependent nuclear receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB05759 Hypothetical protein K06B4.8 [Caenorhabditis elegans] ref|NP_506903.2| K06B4.8 [Caenorhabditis elegans] 0.0
blast CAB05761 Hypothetical protein K06B4.2 [Caenorhabditis elegans] ref|NP_506899.1| Nuclear Hormone Receptor family member (nhr-52) [Caenorhabditis elegans] gb|AAG15146.1| nuclear receptor NHR-52 [Caenorhabditis elegans] sp|O17928|NHR52_CAEEL Nuclear hormone receptor family member nhr-52 2.0E-82
blast AAA83445 Hypothetical protein F44A2.4 [Caenorhabditis elegans] ref|NP_505405.1| F44A2.4 [Caenorhabditis elegans] 2.0E-79
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.5E-47
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.3E-19
Sequence
Target Sequence 
>C. ELEGANS:192379_AT
atgtctacctgccgatatttcgtagaatattcgaaaagactccggcgcttttggatcaga
catcttgcatggtgctttataagtttatagagttgaatattacaaatgaggagtgcattc
tattggcgctgattttcttttgcaatcctgaacaattgccatactcaattttaagaacaa
tttggcgagaaattaacgtttacaatttccttttaaaaatattttttgaaaataaaaata
tttttttcaaacaattttggctggaattcgcatttcaattttctaaaaaaaattgttcag
caatttccgatgagctatctgaaaaagctaaggagacactatcccgacatcaaaagcgtt
actgctctgcattgctccaatattgtcagtcaacatgccaaaaatccgcaccttctcggc
tcactgacctcctatccttgtacaatgtcaccaacaaggcttatgacggttttcaatacc
tttgcatgactttccaatgtcttgcaccagatttta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGTCTACCTGCCGATATTTCGTAG 417 47 671 Antisense
GAAAAGACTCCGGCGCTTTTGGATC 108 353 703 Antisense
GGATCAGACATCTTGCATGGTGCTT 135 511 723 Antisense
GAGGAGTGCATTCTATTGGCGCTGA 495 401 778 Antisense
GGCGCTGATTTTCTTTTGCAATCCT 592 541 795 Antisense
GCTAAGGAGACACTATCCCGACATC 61 303 997 Antisense
TCCCGACATCAAAAGCGTTACTGCT 353 597 1012 Antisense
TTACTGCTCTGCATTGCTCCAATAT 245 683 1029 Antisense
TGACCTCCTATCCTTGTACAATGTC 75 571 1095 Antisense
ATACCTTTGCATGACTTTCCAATGT 161 23 1146 Antisense
TTCCAATGTCTTGCACCAGATTTTA 705 699 1162 Antisense
Sequence Source Affymetrix Proprietary Database