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[193483_at] Zinc finger, C4 type (two domains)

Description C29E6.5 /REP_DB=WormBase Gene ID /WP=CE05336 /GEN=nhr-43 /TR=Q18299 /GB=CAA96605.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_highest_10_10 > 08      6grp_high1_10_10 > 80      4grp_highest_8_8 > 07      4grp_high_8_8 > 21      6grp_highest_nonorm > 52      6grp_total > 92      4grp_total > 10      6grp_cgc > 51      6grp_high1_sub > 02_03_04_05      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 367
1 2 3 4 range
A 292.9
(-3)
P 		326.4
(-2.3)
P 		292.9
(-3)
P 		564.4
(3)
P 		272
B 219.6
(-3)
P 		300.7
(-1.7)
P 		257.5
(-2.4)
P 		587
(3)
P 		367
C 273
(-3)
P 		342.1
(-0.9)
P 		279.8
(-2.8)
P 		468.8
(3)
P 		196
avr 261.8
(-3) 		323.1
(-1.7) 		276.7
(-2.7) 		540.1
(3) 		278

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 689
1 2 3 4 5 6 range
A 729
(1.4)
P 		849.9
(2.9)
P 		539.5
(-0.9)
P 		857.9
(3)
P 		833.4
(2.7)
P 		363.9
(-3)
P 		494
B 640.2
(1.6)
P 		722.9
(2.8)
P 		495.9
(-0.4)
P 		739.1
(3)
P 		705
(2.5)
P 		311.7
(-3)
P 		427
C 669.4
(0.7)
P 		875.5
(2.5)
P 		662.7
(0.6)
P 		675.5
(0.7)
P 		937.6
(3)
P 		248.4
(-3)
P 		689
avr 679.5
(1.3) 		816.1
(2.9) 		566
(-0) 		757.5
(2.2) 		825.3
(3) 		308
(-3) 		517
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 65
1 2 3 4 range
A 106.6
(3)
P 		70.8
(-3)
P 		76.6
(-2)
P 		82.6
(-1)
P 		36
B 70
(-2.1)
P 		74.3
(-1.7)
P 		59.7
(-3)
P 		125.1
(3)
P 		65
C 90.4
(0.5)
P 		98.3
(3)
P 		97.5
(2.8)
P 		79
(-3)
P 		19
avr 89
(0.8) 		81.1
(-1.9) 		77.9
(-3) 		95.6
(3) 		18

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 220
1 2 3 4 5 6 range
A 134.4
(-1.7)
P 		302.3
(3)
P 		117.5
(-2.2)
P 		217.6
(0.6)
P 		251.5
(1.6)
P 		88.6
(-3)
P 		214
B 222.7
(0.8)
P 		240.6
(1.4)
P 		120.4
(-2.9)
P 		195.8
(-0.2)
P 		286.4
(3)
P 		116.2
(-3)
P 		170
C 248.1
(1.5)
P 		267.1
(2)
P 		168.7
(-0.7)
P 		135.8
(-1.6)
P 		303.4
(3)
P 		83.1
(-3)
P 		220
avr 201.7
(0.4) 		270
(2.7) 		135.5
(-1.7) 		183.1
(-0.2) 		280.4
(3) 		96
(-3) 		184
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193483_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8739
Sequence Type Exemplar sequence
Representative Public ID C29E6.5 NCBI
Target Description C29E6.5 /REP_DB=WormBase Gene ID /WP=CE05336 /GEN=nhr-43 /TR=Q18299 /GB=CAA96605.1 /SUBMIT=HINXTON /CHR=4 /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_069853(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069853 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-43) (nhr-43) mRNA, complete cds. 11/11 None
SNAP00000002880 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11901352:11902629:1 11/11 None
GENEFINDER00000002884 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11899699:11902629:1 11/11 None
C29E6.5 ENSEMBL cdna:known chromosome:CEL140:IV:11899653:11902880:1 gene:C29E6.5 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
chrIV:11899704-11902635(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-43
Ensembl C29E6.5
Entrez Gene 178121 Entrez gene
SwissProt Q18299 EMBL-EBI
WormBase CE05336 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 CAA96605 Hypothetical protein C29E6.5 [Caenorhabditis elegans] ref|NP_502254.1| Nuclear Hormone Receptor family member (nhr-43) [Caenorhabditis elegans] 0.0
blast AAG15133 nuclear receptor NHR-43 [Caenorhabditis elegans] 0.0
blast CAE62142 Hypothetical protein CBG06187 [Caenorhabditis briggsae] 1.0E-167
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 9.6E-8
Sequence
Target Sequence 
>C. ELEGANS:193483_AT
tatgccgagtgtgatgtccaggagcaaaagagaatttgtgctatgttttatccagttctc
tgggaaatcgagtcctgctactggacctaccgtaatatgccagttcaacctgaatacgag
actttgatgatgtgcactcaaactacttacatcgactcgaaaaatgttagatactggctt
ggaaataccactggattgaatgaatctgatattcaagcagttgaagctcgtttggagaat
cttctaactaaagcaagaaacttggttctcgagccaatgcacaaattgatcatcaaagaa
ttcgaattcattacccttttggctctcaacatctgggctcctcgcaatcatcgcggctgt
gtttccgaagatcgcgccgagcaagttcgtgatgctcttttcgatgatctacattatttg
tattgtgatggcttgaaaatcgacaagtattcaagtagaatgggagaaatgatgtgtctt
catacagaagttcagaatgccgatatgtcctccaccatcaagaatatcctattt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TATGCCGAGTGTGATGTCCAGGAGC 567 657 796 Antisense
GTGCTATGTTTTATCCAGTTCTCTG 617 479 833 Antisense
AATCGAGTCCTGCTACTGGACCTAC 648 145 861 Antisense
GGACCTACCGTAATATGCCAGTTCA 398 521 878 Antisense
GTGCACTCAAACTACTTACATCGAC 63 481 927 Antisense
TCGAATTCATTACCCTTTTGGCTCT 32 601 1097 Antisense
CTCGCAATCATCGCGGCTGTGTTTC 331 233 1136 Antisense
GGCTGTGTTTCCGAAGATCGCGCCG 193 541 1150 Antisense
ATGCTCTTTTCGATGATCTACATTA 427 43 1187 Antisense
TTCAGAATGCCGATATGTCCTCCAC 128 687 1286 Antisense
CTCCACCATCAAGAATATCCTATTT 208 235 1305 Antisense
Sequence Source Affymetrix Proprietary Database