[Home] | [Total List]

[188454_at]

Description ZK418.1 /REP_DB=WormBase Gene ID /WP=CE00731 /GEN=nhr-9 /TR=SW:Q23489 /GB=AAA50685.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 08      4grp_total > 15      6grp_cgc > 10      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 96
1 2 3 4 range
A 78.3
(3)
A 		12
(-3)
A 		15.1
(-2.7)
A 		57.8
(1.1)
A 		66
B 72.2
(0.9)
A 		19.5
(-3)
A 		23.4
(-2.7)
A 		100.8
(3)
A 		81
C 71
(2)
P 		12.6
(-2.4)
A 		5.2
(-3)
A 		84.4
(3)
A 		79
avr 73.8
(2.3) 		14.7
(-3) 		14.6
(-3) 		81
(3) 		66

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 42
1 2 3 4 5 6 range
A 12
(-2.4)
A 		11.2
(-2.6)
A 		46.3
(3)
A 		46.6
(3)
A 		8.5
(-3)
A 		35.6
(1.3)
A 		38
B 38
(2.3)
A 		4.4
(-3)
A 		29.2
(0.9)
A 		23.1
(-0.1)
A 		42.6
(3)
A 		16.7
(-1.1)
A 		38
C 43
(3)
A 		42.5
(2.9)
A 		7.6
(-3)
A 		10.4
(-2.5)
A 		9.2
(-2.7)
A 		11.9
(-2.3)
A 		35
avr 31
(3) 		19.4
(-3) 		27.7
(1.3) 		26.7
(0.8) 		20.1
(-2.6) 		21.4
(-2) 		12
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 27
1 2 3 4 range
A 28.5
(3)
A 		2.6
(-3)
A 		4
(-2.7)
A 		8.5
(-1.6)
A 		26
B 23
(3)
A 		4.8
(-3)
A 		5.4
(-2.8)
A 		21.5
(2.5)
A 		18
C 23.5
(3)
P 		3.6
(-2.5)
A 		1.8
(-3)
A 		14.2
(0.4)
A 		22
avr 25
(3) 		3.7
(-3) 		3.7
(-3) 		14.7
(0.1) 		21

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 2.2
(-3)
A 		4
(-1.9)
A 		10.1
(1.9)
A 		11.8
(3)
A 		2.6
(-2.8)
A 		8.7
(1.1)
A 		10
B 13.2
(1.4)
A 		1.5
(-3)
A 		7.1
(-0.9)
A 		6.1
(-1.3)
A 		17.3
(3)
A 		6.2
(-1.2)
A 		16
C 15.9
(3)
A 		13
(1.8)
A 		1.9
(-3)
A 		2.1
(-2.9)
A 		3
(-2.5)
A 		4
(-2.1)
A 		14
avr 10.4
(3) 		6.2
(-3) 		6.4
(-2.7) 		6.7
(-2.3) 		7.6
(-1) 		6.3
(-2.9) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188454_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6224
Sequence Type Exemplar sequence
Representative Public ID ZK418.1 NCBI
Target Description ZK418.1 /REP_DB=WormBase Gene ID /WP=CE00731 /GEN=nhr-9 /TR=SW:Q23489 /GB=AAA50685.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=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_066149(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_066149 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-9) (nhr-9) mRNA, complete cds. 11/11 None
SNAP00000003350 ENSEMBL cdna:SNAP chromosome:CEL140:III:7095477:7097003:1 11/11 None
ZK418.1 ENSEMBL cdna:known chromosome:CEL140:III:7095477:7097003:1 gene:ZK418.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000003356 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:7095474-7097001(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-9
Ensembl ZK418.1
Entrez Gene 191718 Entrez gene
SwissProt Q23489 EMBL-EBI
WormBase CE00731 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 AAA50685 Nuclear hormone receptor family protein 9 [Caenorhabditis elegans] ref|NP_498550.1| Nuclear Hormone Receptor family member (nhr-9) [Caenorhabditis elegans] sp|Q23489|NHR9_CAEEL Nuclear hormone receptor family member nhr-9 0.0
blast CAE70128 Hypothetical protein CBG16588 [Caenorhabditis briggsae] 1.0E-112
blast AAB52268 Hypothetical protein F47C10.3 [Caenorhabditis elegans] ref|NP_504063.1| F47C10.3 [Caenorhabditis elegans] 2.0E-47
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.2E-48
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.0E-5
Sequence
Target Sequence 
>C. ELEGANS:188454_AT
gtttacacgacatctgttttccgaagattttcgaattgtactcaaatcatcttgtttcaa
aattgcgtctttcattaaagcagtacgatcatattcaatgaaaaaagaagatatccgcta
tccagatggtgaactcattgttccaatggaacttgtcccattttgtacgtccgaatttct
tgcaagagttcaatgtcggttgattggtagaatcattgaattaaaattgaaagaagagga
atttttgttactcattgcaattttcgtttgcgatcccactgctaacaacttgacagctcg
tggaagagaaatactcagtttccatcaaaatgtttacaatgatgcacttttacaattatg
tctgaggaatgaaggatcttgtggtccagctcgattcaatgatttattgtcagtctgtca
cgtggtgaataaacacgtagaagatattgggcagttgtgctttatgttcagttttcatcc
accaactac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTTACACGACATCTGTTTTCCGAA 171 449 483 Antisense
GATATCCGCTATCCAGATGGTGAAC 618 425 592 Antisense
TGGAACTTGTCCCATTTTGTACGTC 104 547 629 Antisense
TTGTACGTCCGAATTTCTTGCAAGA 74 705 645 Antisense
TGCAATTTTCGTTTGCGATCCCACT 402 575 738 Antisense
GATCCCACTGCTAACAACTTGACAG 301 417 754 Antisense
TGAAGGATCTTGTGGTCCAGCTCGA 151 575 852 Antisense
GTGGTCCAGCTCGATTCAATGATTT 345 489 863 Antisense
ATTGTCAGTCTGTCACGTGGTGAAT 673 3 888 Antisense
GGGCAGTTGTGCTTTATGTTCAGTT 304 493 931 Antisense
TGTTCAGTTTTCATCCACCAACTAC 552 559 947 Antisense
Sequence Source Affymetrix Proprietary Database