[Home] | [Total List]

[193602_at] Zinc finger, C4 type (two domains) (2 domains)

Description K06B4.10 /REP_DB=WormBase Gene ID /WP=CE11800 /TR=O17934 /GB=CAB05766.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains) (2 domains)
Cluster 6grp_total > 10      4grp_total > 12      6grp_cgc > 64      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 214
1 2 3 4 range
A 85.4
(-2.7)
P 		77.4
(-3)
A 		83.5
(-2.8)
A 		239.6
(3)
P 		162
B 75.4
(1.9)
P 		65.3
(0.9)
A 		25.8
(-3)
A 		86.4
(3)
P 		61
C 74
(-0.9)
A 		76
(-0.8)
A 		36.8
(-3)
A 		143.5
(3)
P 		107
avr 78.3
(-1.4) 		72.9
(-1.7) 		48.7
(-3) 		156.5
(3) 		108

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 113
1 2 3 4 5 6 range
A 42.6
(-0.9)
A 		32
(-1.9)
A 		80.6
(2.9)
P 		40.4
(-1.1)
A 		81.6
(3)
P 		21.4
(-3)
A 		60
B 44.4
(-1)
A 		77.4
(3)
A 		48.2
(-0.5)
A 		51.2
(-0.2)
A 		62.4
(1.2)
A 		27.5
(-3)
A 		50
C 25.2
(-3)
A 		134
(3)
P 		52.6
(-1.5)
A 		30.9
(-2.7)
A 		45.9
(-1.9)
A 		40.7
(-2.1)
A 		109
avr 37.4
(-2.1) 		81.1
(3) 		60.5
(0.6) 		40.8
(-1.7) 		63.3
(0.9) 		29.9
(-3) 		51
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 31.1
(1.7)
P 		16.8
(-3)
A 		21.8
(-1.4)
A 		35.1
(3)
P 		18
B 24
(3)
P 		16.1
(0.4)
A 		6
(-3)
A 		18.4
(1.1)
P 		18
C 24.5
(3)
A 		21.8
(1.6)
A 		12.8
(-3)
A 		24.2
(2.8)
P 		12
avr 26.5
(3) 		18.2
(-0.8) 		13.5
(-3) 		25.9
(2.7) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 36
1 2 3 4 5 6 range
A 7.9
(-2.2)
A 		11.4
(-1.1)
A 		17.5
(0.8)
P 		10.2
(-1.5)
A 		24.6
(3)
P 		5.2
(-3)
A 		19
B 15.4
(-1)
A 		25.8
(3)
A 		11.7
(-2.5)
A 		13.5
(-1.8)
A 		25.4
(2.8)
A 		10.3
(-3)
A 		16
C 9.4
(-2.4)
A 		40.9
(3)
P 		13.4
(-1.8)
A 		6.2
(-3)
A 		14.9
(-1.5)
A 		13.6
(-1.7)
A 		35
avr 10.9
(-2.6) 		26
(3) 		14.2
(-1.3) 		10
(-2.9) 		21.6
(1.4) 		9.7
(-3) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193602_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13963
Sequence Type Exemplar sequence
Representative Public ID K06B4.10 NCBI
Target Description K06B4.10 /REP_DB=WormBase Gene ID /WP=CE11800 /TR=O17934 /GB=CAB05766.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains) (2 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_074504(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074504 NCBI Caenorhabditis elegans K06B4.10 (K06B4.10) mRNA, complete cds. 11/11 None
SNAP00000010514 ENSEMBL cdna:SNAP chromosome:CEL140:V:15701141:15702483:-1 10/11 None
GENEFINDER00000010520 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15701141:15704943:-1 10/11 None
K06B4.10 ENSEMBL cdna:known chromosome:CEL140:V:15701112:15702483:-1 gene:K06B4.10 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:15701111-15702483(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains) (2 domains)
Gene Symbol nhr-199
Ensembl K06B4.10
Entrez Gene 187058 Entrez gene
SwissProt O17934 EMBL-EBI
WormBase CE11800 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
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB05766 Hypothetical protein K06B4.10 [Caenorhabditis elegans] ref|NP_506905.1| K06B4.10 [Caenorhabditis elegans] 0.0
blast CAB05768 Hypothetical protein K06B4.11 [Caenorhabditis elegans] ref|NP_741644.1| Nuclear Hormone Receptor family member (nhr-53) [Caenorhabditis elegans] sp|O17933|NHR53_CAEEL Nuclear hormone receptor family member nhr-53 0.0
blast AAG15148 nuclear receptor NHR-53 [Caenorhabditis elegans] 0.0
blast AAG15147 nuclear receptor NHR-53 [Caenorhabditis elegans] 0.0
blast CAB05766 Hypothetical protein K06B4.10 [Caenorhabditis elegans] ref|NP_506905.1| K06B4.10 [Caenorhabditis elegans] 1.0E-176
blast CAB05768 Hypothetical protein K06B4.11 [Caenorhabditis elegans] ref|NP_741644.1| Nuclear Hormone Receptor family member (nhr-53) [Caenorhabditis elegans] sp|O17933|NHR53_CAEEL Nuclear hormone receptor family member nhr-53 1.0E-125
blast AAG15148 nuclear receptor NHR-53 [Caenorhabditis elegans] 1.0E-125
blast CAB05768 Hypothetical protein K06B4.11 [Caenorhabditis elegans] ref|NP_741644.1| Nuclear Hormone Receptor family member (nhr-53) [Caenorhabditis elegans] sp|O17933|NHR53_CAEEL Nuclear hormone receptor family member nhr-53 1.0E-106
blast AAG15148 nuclear receptor NHR-53 [Caenorhabditis elegans] 1.0E-106
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.3E-19
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.3E-10
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.5E-6
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 9.0E-24
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.2E-32
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 9.0E-24
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.5E-29
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.9E-21
Sequence
Target Sequence 
>C. ELEGANS:193602_AT
tcttcttgtcgttctgtctatttgagagctcgtttaatggatgttcagcaaagcaaaaaa
atgtgatgctcattccatccggtgactacatcgatttggctcattctgaatcgtttttca
ccaacgatcatcaaactttcactgaaagagacaatattgaaatactcgctcaaaggctaa
aattaatacaatcatctataactgttccgttgagtgctgaaaatgtagatatctatgagt
tcctcgcgcttgcgggtatcattctcttggaatcggattctgagtcagaagccgattttc
aagaagaagctgtgaagattaagagcaatatcatcaaggatctactttttcactatcaat
gtataaatatttatgatgacgcagcaatgaggcttggcgcagttttgtccatacttccat
caattcaagtttgttgctcgcggagcaacaattttttgattataaactctaaagatgttt
cagagagccagtcaccgttttcacgaatacatggaaatcaaaaatatgctcaatttgtac
gctcttcccaagaatctttac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTTCTTGTCGTTCTGTCTATTTGA 359 617 617 Antisense
TCATTCCATCCGGTGACTACATCGA 334 619 686 Antisense
GACTACATCGATTTGGCTCATTCTG 509 373 700 Antisense
GGCTCATTCTGAATCGTTTTTCACC 169 539 714 Antisense
ACCAACGATCATCAAACTTTCACTG 71 85 736 Antisense
AGATATCTATGAGTTCCTCGCGCTT 60 67 843 Antisense
CTTGCGGGTATCATTCTCTTGGAAT 95 219 865 Antisense
AATTCAAGTTTGTTGCTCGCGGAGC 417 171 1038 Antisense
GCCAGTCACCGTTTTCACGAATACA 163 275 1103 Antisense
TATGCTCAATTTGTACGCTCTTCCC 585 657 1141 Antisense
GTACGCTCTTCCCAAGAATCTTTAC 612 457 1153 Antisense
Sequence Source Affymetrix Proprietary Database