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[188447_s_at] zinc finger protein

Description T05C3.1 /REP_DB=WormBase Gene ID /WP=CE28413 /GB=AAB65358.2 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc-finger protein
Cluster 6grp_total > 02      4grp_total > 15      6grp_cgc > 40      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 124
1 2 3 4 range
A 142.3
(3)
P 		106.8
(0.2)
A 		67.3
(-3)
A 		130.6
(2.1)
P 		75
B 167.3
(3)
P 		113.8
(-3)
A 		139.2
(-0.2)
A 		118.8
(-2.4)
P 		54
C 127.7
(-0.4)
P 		77.8
(-3)
A 		104.5
(-1.6)
A 		190.8
(3)
P 		113
avr 145.8
(2.9) 		99.5
(-3) 		103.7
(-2.5) 		146.7
(3) 		47

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 163
1 2 3 4 5 6 range
A 122.4
(-0.2)
P 		148.4
(0.7)
P 		47.6
(-3)
P 		210.5
(3)
P 		105.7
(-0.9)
A 		63.3
(-2.4)
A 		163
B 95
(0.2)
P 		125
(2.9)
P 		126.2
(3)
P 		80.1
(-1.1)
A 		58.8
(-3)
A 		112.2
(1.8)
A 		67
C 110.4
(-1.9)
P 		179.6
(3)
P 		106.6
(-2.2)
P 		128.6
(-0.6)
A 		95.4
(-3)
A 		116.2
(-1.5)
M 		84
avr 109.3
(-0.9) 		151
(3) 		93.5
(-2.4) 		139.7
(1.9) 		86.6
(-3) 		97.2
(-2) 		64
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 36
1 2 3 4 range
A 51.8
(3)
P 		23.2
(-2)
A 		17.6
(-3)
A 		19.1
(-2.7)
P 		34
B 53.4
(3)
P 		28.1
(-2.4)
A 		32.3
(-1.5)
A 		25.3
(-3)
P 		28
C 42.3
(3)
P 		22.4
(-3)
A 		36.4
(1.2)
A 		32.2
(-0)
P 		20
avr 49.2
(3) 		24.6
(-3) 		28.8
(-2) 		25.5
(-2.8) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 44
1 2 3 4 5 6 range
A 22.6
(-1.3)
P 		52.8
(2.9)
P 		10.4
(-3)
P 		53.4
(3)
P 		31.9
(0)
A 		15.4
(-2.3)
A 		43
B 33.1
(0.5)
P 		41.6
(2.9)
P 		30.7
(-0.2)
P 		21.2
(-3)
A 		23.9
(-2.2)
A 		41.8
(3)
A 		21
C 40.9
(0.1)
P 		54.8
(3)
P 		27.1
(-2.8)
P 		25.9
(-3)
A 		30.9
(-2)
A 		38.9
(-0.3)
M 		29
avr 32.2
(-0.9) 		49.7
(3) 		22.7
(-3) 		33.5
(-0.6) 		28.9
(-1.6) 		32
(-0.9) 		27
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188447_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11848
Sequence Type Exemplar sequence
Representative Public ID T05C3.1 NCBI
Target Description T05C3.1 /REP_DB=WormBase Gene ID /WP=CE28413 /GB=AAB65358.2 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc-finger protein
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_072052(10), NM_072054(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072052 NCBI Caenorhabditis elegans T05C3.1 (T05C3.1) mRNA, complete cds. 10/11 None
NM_072054 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-47) (nhr-47) mRNA, complete cds. 11/11 A 
SNAP00000033919 ENSEMBL cdna:SNAP chromosome:CEL140:V:5508048:5512430:1 11/11 None
GENEFINDER00000033933 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:5508048:5512430:1 11/11 None
T05C3.1 ENSEMBL cdna:known chromosome:CEL140:V:5505265:5505729:1 gene:T05C3.1 10/11 None
C24G6.4 ENSEMBL cdna:known chromosome:CEL140:V:5507908:5512551:1 gene:C24G6.4 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:5508047-5509319(+) 100.0 100.0
chrV:5505264-5506536(+) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-47
Ensembl T05C3.1
C24G6.4
Entrez Gene 178933 Entrez gene
SwissProt Q17370 EMBL-EBI
WormBase CE27727 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 AAC19212 Nuclear hormone receptor family protein 47 [Caenorhabditis elegans] ref|NP_504455.1| Nuclear Hormone Receptor family member (nhr-47) [Caenorhabditis elegans] gb|AAO39174.1| nuclear receptor NHR-47 [Caenorhabditis elegans] sp|Q17370|NHR47_CAEEL Nuclear hormone receptor family member nhr-47 gb|AAA93297.1| Steroid hormone receptor-like protein 0.0
blast T33174 hypothetical protein C24G6.4 - Caenorhabditis elegans 0.0
blast CAE64622 Hypothetical protein CBG09380 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.7E-37
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.2E-9
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.5E-25
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 6.7E-42
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.5E-25
Sequence
Target Sequence 
>C. ELEGANS:188447_S_AT
gaaaagttgccaccaggtacactatgcgcagtctgtgacgacattgcaactggcaaacat
tacagcgttgcttcatgcaatggatgcaaaactttttttcgtcgggctcttgtgaataac
cgagaattcgtgtgtcaagggaataaagattgtccagttaacaaaggagttcgatgcgcg
tgtcgttattgtcgacttcaaaaatgtttggccgttggaatggataagaattcaattcaa
aacgaccgtgatagaattggataca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAAAGTTGCCACCAGGTACACTAT 138 355 19 Antisense
GGTACACTATGCGCAGTCTGTGACG 558 503 34 Antisense
GTCTGTGACGACATTGCAACTGGCA 406 471 49 Antisense
AACATTACAGCGTTGCTTCATGCAA 196 137 74 Antisense
TTTTTTTCGTCGGGCTCTTGTGAAT 221 675 111 Antisense
CGGGCTCTTGTGAATAACCGAGAAT 120 245 121 Antisense
ACCGAGAATTCGTGTGTCAAGGGAA 383 89 137 Antisense
AACAAAGGAGTTCGATGCGCGTGTC 599 133 178 Antisense
GTGTCGTTATTGTCGACTTCAAAAA 584 487 198 Antisense
AATGTTTGGCCGTTGGAATGGATAA 584 161 221 Antisense
AACGACCGTGATAGAATTGGATACA 252 145 259 Antisense
Sequence Source Affymetrix Proprietary Database