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[192462_at] Zinc finger, C4 type (two domains)

Description F09C6.8 /REP_DB=WormBase Gene ID /WP=CE15767 /TR=O45328 /GB=CAB04068.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_total > 46      4grp_total > 48      6grp_cgc > 55      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 49
1 2 3 4 range
A 31.7
(0.2)
A 		5.6
(-3)
A 		54.5
(3)
A 		18.7
(-1.4)
A 		49
B 32
(-0.4)
A 		51.1
(3)
A 		46.7
(2.2)
A 		17.1
(-3)
A 		34
C 5.8
(-3)
A 		36
(3)
A 		33.7
(2.5)
A 		23.9
(0.6)
A 		30
avr 23.2
(-2.2) 		30.9
(-0.4) 		45
(3) 		19.9
(-3) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 45
1 2 3 4 5 6 range
A 19.2
(-3)
A 		47.9
(3)
A 		41.2
(1.6)
A 		27.8
(-1.2)
A 		30.1
(-0.7)
A 		44.1
(2.2)
A 		29
B 30.2
(0.8)
A 		36.9
(3)
A 		31.9
(1.4)
A 		36.1
(2.7)
A 		18.4
(-3)
A 		19.8
(-2.5)
A 		19
C 17.3
(-0.4)
A 		29.2
(1.9)
A 		3.3
(-3)
A 		10.7
(-1.6)
A 		3.7
(-2.9)
A 		35.1
(3)
A 		32
avr 22.2
(-1.6) 		38
(3) 		25.5
(-0.6) 		24.9
(-0.8) 		17.4
(-3) 		33
(1.5) 		21
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13
1 2 3 4 range
A 11.5
(1.8)
A 		1.2
(-3)
A 		14.2
(3)
A 		2.7
(-2.3)
A 		13
B 10.2
(1.4)
A 		12.6
(3)
A 		10.8
(1.8)
A 		3.6
(-3)
A 		9
C 1.9
(-3)
A 		10.3
(2.1)
A 		11.7
(3)
A 		4
(-1.7)
A 		10
avr 7.9
(0.1) 		8
(0.1) 		12.2
(3) 		3.4
(-3) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 16
1 2 3 4 5 6 range
A 3.5
(-3)
A 		17
(3)
A 		9
(-0.6)
A 		7.1
(-1.4)
A 		9.1
(-0.5)
A 		10.7
(0.2)
A 		14
B 10.5
(0.8)
A 		12.3
(3)
A 		7.8
(-2.5)
A 		9.6
(-0.3)
A 		7.5
(-2.9)
A 		7.4
(-3)
A 		5
C 6.4
(0.1)
A 		8.9
(1.5)
A 		0.8
(-3)
A 		2.1
(-2.3)
A 		1.2
(-2.8)
A 		11.7
(3)
A 		11
avr 6.8
(-2.2) 		12.7
(3) 		5.9
(-3) 		6.3
(-2.6) 		5.9
(-3) 		9.9
(0.5) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192462_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14764
Sequence Type Exemplar sequence
Representative Public ID F09C6.8 NCBI
Target Description F09C6.8 /REP_DB=WormBase Gene ID /WP=CE15767 /TR=O45328 /GB=CAB04068.1 /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_074871(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_074871 NCBI Caenorhabditis elegans F09C6.8 (F09C6.8) mRNA, complete cds. 11/11 None
GENEFINDER00000006368 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:16907496:16917854:1 11/11 None
F09C6.8 ENSEMBL cdna:known chromosome:CEL140:V:16907496:16909865:1 gene:F09C6.8 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000006351 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:16907495-16909865(+) 98.8 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-262
Ensembl F09C6.8
Entrez Gene 184235 Entrez gene
SwissProt O45328 EMBL-EBI
WormBase CE15767 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 CAB04068 Hypothetical protein F09C6.8 [Caenorhabditis elegans] ref|NP_507272.1| F09C6.8 [Caenorhabditis elegans] 0.0
blast CAB04069 Hypothetical protein F09C6.9 [Caenorhabditis elegans] ref|NP_507273.2| Nuclear Hormone Receptor family member (nhr-116) [Caenorhabditis elegans] gb|AAO39205.1| nuclear receptor NHR-116 [Caenorhabditis elegans] 0.0
blast AAB70328 Hypothetical protein C38C3.9 [Caenorhabditis elegans] ref|NP_503435.1| C38C3.9 [Caenorhabditis elegans] 1.0E-173
blast CAE62481 Hypothetical protein CBG06579 [Caenorhabditis briggsae] 1.0E-152
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.8E-31
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.9E-25
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 5.5E-31
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 5.9E-54
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 8.2E-22
Sequence
Target Sequence 
>C. ELEGANS:192462_AT
tgaagtcgagtgtgcagccctgaaagtaattctcctgctaaccccttcctgctccaaacg
tgcaatctatgctggccgggaaggtgtgctcgccgggctctacacaaattgtaccgaaga
gcttatggatcactgtatgagaaagtttccggagaacggtgcagtgaggttcggggaaat
tctgctactgttaagcggtattcggtgcggaatcaagactatgtataatcagacacgagt
ctctgatctctttaattttatgaaatttgataattctgtaaaaatattgattattttgtc
aggccggcgctccgcagctttgcaaaacgatgctctgtcttttgttcagtgcgacacttt
ccaacaaaatgatgtcttcaaatcaataaaaaacagtaaaacatattttttaagtcattt
tcatttttttcataaaaagtccaatagttcaagtattttcgaaacctattataaatccct
gtctgccttatgccaaaaagtctgcgggctgcgtgtttgtatctgcgaaatcgacatcgg
tcaagaaaacggcggttatcaggatcccgatgtacccttgatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGAAGTCGAGTGTGCAGCCCTGAAA 391 573 882 Antisense
AAACGTGCAATCTATGCTGGCCGGG 624 117 937 Antisense
GCCGGGCTCTACACAAATTGTACCG 109 283 973 Antisense
GGTTCGGGGAAATTCTGCTACTGTT 527 505 1049 Antisense
GACACGAGTCTCTGATCTCTTTAAT 404 367 1113 Antisense
CGCTCCGCAGCTTTGCAAAACGATG 551 253 1189 Antisense
GATGCTCTGTCTTTTGTTCAGTGCG 5 415 1210 Antisense
CTATTATAAATCCCTGTCTGCCTTA 452 223 1347 Antisense
CCAAAAAGTCTGCGGGCTGCGTGTT 252 275 1374 Antisense
GCTGCGTGTTTGTATCTGCGAAATC 130 297 1389 Antisense
TCAGGATCCCGATGTACCCTTGATC 656 603 1440 Antisense
Sequence Source Affymetrix Proprietary Database