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[192456_at] Zinc finger, C4 type (two domains)

Description F41D3.3 /REP_DB=WormBase Gene ID /WP=CE16022 /TR=O45507 /GB=CAB04374.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_total > 30      4grp_total > 44      6grp_cgc > 65      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 55
1 2 3 4 range
A 9.5
(-2.8)
A 		52.3
(3)
A 		12.9
(-2.3)
A 		8.1
(-3)
A 		44
B 55.3
(3)
A 		10.9
(-2.9)
A 		10.5
(-3)
A 		10.2
(-3)
A 		45
C 24.9
(-3)
A 		62.8
(3)
A 		43.9
(0)
A 		33.9
(-1.6)
A 		38
avr 29.9
(0) 		42
(3) 		22.4
(-1.8) 		17.4
(-3) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 31
1 2 3 4 5 6 range
A 5.1
(-3)
A 		32.2
(3)
A 		16.3
(-0.5)
A 		9.4
(-2)
A 		5.2
(-3)
A 		11.2
(-1.6)
A 		27
B 6.8
(-2.1)
A 		10.1
(-1.5)
A 		11
(-1.3)
A 		33.2
(3)
A 		5.1
(-2.5)
A 		2.3
(-3)
A 		31
C 7.8
(-1.9)
A 		4
(-3)
A 		7.2
(-2.1)
A 		4.1
(-3)
A 		7.2
(-2.1)
A 		25.2
(3)
A 		21
avr 6.6
(-2.5) 		15.4
(2.9) 		11.5
(0.5) 		15.6
(3) 		5.8
(-3) 		12.9
(1.3) 		10
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 3.4
(-1.7)
A 		11.3
(3)
A 		3.4
(-1.7)
A 		1.2
(-3)
A 		10
B 17.6
(3)
A 		2.7
(-2.8)
A 		2.4
(-2.9)
A 		2.2
(-3)
A 		15
C 8.3
(-1.7)
A 		18.1
(3)
A 		15.3
(1.6)
A 		5.7
(-3)
A 		12
avr 9.8
(2.3) 		10.7
(3) 		7
(0.1) 		3
(-3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 11
1 2 3 4 5 6 range
A 0.9
(-3)
A 		11.4
(3)
A 		3.5
(-1.5)
A 		2.4
(-2.1)
A 		1.6
(-2.6)
A 		2.7
(-2)
A 		11
B 2.4
(-1.9)
A 		3.3
(-1.2)
A 		2.7
(-1.6)
A 		8.8
(3)
A 		2.1
(-2.1)
A 		0.9
(-3)
A 		8
C 2.9
(-1.3)
A 		1.2
(-2.7)
A 		1.8
(-2.2)
A 		0.8
(-3)
A 		2.3
(-1.8)
A 		8.4
(3)
A 		8
avr 2.1
(-2.8) 		5.3
(3) 		2.7
(-1.7) 		4
(0.6) 		2
(-3) 		4
(0.6) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192456_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2183
Sequence Type Exemplar sequence
Representative Public ID F41D3.3 NCBI
Target Description F41D3.3 /REP_DB=WormBase Gene ID /WP=CE16022 /TR=O45507 /GB=CAB04374.1 /SUBMIT=HINXTON /CHR=1 /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_060691(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060691 NCBI Caenorhabditis elegans F41D3.3 (F41D3.3) mRNA, complete cds. 11/11 None
SNAP00000037768 ENSEMBL cdna:SNAP chromosome:CEL140:I:12260025:12261676:1 11/11 None
GENEFINDER00000037789 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12260025:12261676:1 11/11 None
F41D3.3 ENSEMBL cdna:known chromosome:CEL140:I:12260028:12261676:1 gene:F41D3.3 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
chrI:12259958-12261607(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-265
Ensembl F41D3.3
Entrez Gene 185603 Entrez gene
WormBase CE16022 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 CAB04374 Hypothetical protein F41D3.3 [Caenorhabditis elegans] ref|NP_493092.1| F41D3.3 [Caenorhabditis elegans] 0.0
blast CAB05462 Hypothetical protein C54C8.1 [Caenorhabditis elegans] ref|NP_493156.2| C54C8.1 [Caenorhabditis elegans] 1.0E-74
blast CAB05622 Hypothetical protein T15D6.6 [Caenorhabditis elegans] ref|NP_493137.2| Nuclear Hormone Receptor family member (nhr-77) [Caenorhabditis elegans] 1.0E-70
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.3E-4
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 6.2E-15
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.3E-4
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 6.2E-15
Sequence
Target Sequence 
>C. ELEGANS:192456_AT
actgccctggtgttgatatccttgatcgagaaagtgcgcaggccctcagaaaacactttc
agtttgcggatgtttggctggactccgcttgggagttttcaaagtctccagaactcttgt
ttgcacttggaagaagcaacttgaataatttgaacagcttgaacaacatgaacaacacca
accaagagctatccgaattcatctccctagtcaagtcaacactagtctccccactctctc
gcctacgcctagacatcactgaattcgcagccttcaaagctattgccacctggaagttga
tctaccacgagacgagcacagcgatgaaaattattgcccaggagcagtacgaaggtgtta
ctttcgctcttagaaggatttacaagacttcaagatccatagacgacattgaaattgcgg
ttcgaatcggagatctgacgttgctggt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACTGCCCTGGTGTTGATATCCTTGA 117 99 551 Antisense
AGTGCGCAGGCCCTCAGAAAACACT 259 59 583 Antisense
GGCTGGACTCCGCTTGGGAGTTTTC 24 515 626 Antisense
GTCTCCAGAACTCTTGTTTGCACTT 439 471 654 Antisense
AAGAGCTATCCGAATTCATCTCCCT 181 155 734 Antisense
TTCATCTCCCTAGTCAAGTCAACAC 695 687 748 Antisense
AGACATCACTGAATTCGCAGCCTTC 695 71 801 Antisense
CGCAGCCTTCAAAGCTATTGCCACC 646 253 816 Antisense
GCCACCTGGAAGTTGATCTACCACG 330 279 835 Antisense
GAAGGTGTTACTTTCGCTCTTAGAA 527 333 901 Antisense
GAATCGGAGATCTGACGTTGCTGGT 581 327 974 Antisense
Sequence Source Affymetrix Proprietary Database