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[192603_at] zinc finger protein

Description C33G8.6 /REP_DB=WormBase Gene ID /WP=CE17496 /GEN=nhr-42 /TR=SW:O76828 /GB=AAC25857.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_highest_10_10 > 02      6grp_high1_10_10 > 11      4grp_highest_8_8 > 38      4grp_high_8_8 > 03      6grp_highest_nonorm > 61      6grp_total > 13      4grp_total > 05      6grp_cgc > 60      6grp_high1_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 629
1 2 3 4 range
A 826.2
(-0.1)
P 		543.2
(-3)
P 		578.3
(-2.6)
P 		1122.6
(3)
P 		579
B 811.1
(-0.7)
P 		581.9
(-3)
P 		643.2
(-2.4)
P 		1172.3
(3)
P 		590
C 876.5
(0.4)
P 		606.5
(-3)
P 		610.1
(-3)
P 		1077.5
(3)
P 		471
avr 837.9
(-0.1) 		577.2
(-3) 		610.5
(-2.6) 		1124.1
(3) 		547

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 265
1 2 3 4 5 6 range
A 527.4
(2.6)
P 		460.3
(1)
P 		546.7
(3)
P 		400.3
(-0.3)
P 		317.8
(-2.2)
P 		282.1
(-3)
P 		265
B 468.1
(2.8)
P 		451
(2.1)
P 		389.8
(-0.2)
P 		474.3
(3)
P 		429.9
(1.3)
P 		314.7
(-3)
P 		160
C 404.7
(0.5)
P 		466.7
(2.8)
P 		408.7
(0.7)
P 		471.4
(3)
P 		311
(-3)
P 		321.4
(-2.6)
P 		160
avr 466.7
(3) 		459.3
(2.7) 		448.4
(2.3) 		448.7
(2.3) 		352.9
(-1.3) 		306.1
(-3) 		161
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 183
1 2 3 4 range
A 300.8
(3)
P 		117.9
(-3)
P 		151.2
(-1.9)
P 		164.3
(-1.5)
P 		183
B 258.7
(3)
P 		143.7
(-3)
P 		149
(-2.7)
P 		249.8
(2.5)
P 		115
C 290.1
(3)
P 		174.4
(-3)
P 		212.7
(-1)
P 		181.7
(-2.6)
P 		116
avr 283.2
(3) 		145.3
(-3) 		171
(-1.9) 		198.6
(-0.7) 		138

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 106
1 2 3 4 5 6 range
A 97.2
(-1.2)
P 		163.7
(3)
P 		119.1
(0.2)
P 		101.5
(-0.9)
P 		95.9
(-1.3)
P 		68.7
(-3)
P 		95
B 162.9
(2.1)
P 		150.1
(1.2)
P 		94.6
(-3)
P 		125.6
(-0.7)
P 		174.7
(3)
P 		117.3
(-1.3)
P 		80
C 150
(3)
P 		142.4
(2.2)
P 		104
(-2)
P 		94.8
(-3)
P 		100.6
(-2.4)
P 		107.6
(-1.6)
P 		55
avr 136.7
(1.3) 		152.1
(3) 		105.9
(-2.1) 		107.3
(-2) 		123.7
(-0.1) 		97.9
(-3) 		54
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192603_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11360
Sequence Type Exemplar sequence
Representative Public ID C33G8.6 NCBI
Target Description C33G8.6 /REP_DB=WormBase Gene ID /WP=CE17496 /GEN=nhr-42 /TR=SW:O76828 /GB=AAC25857.1 /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_072370(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072370 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-42) (nhr-42) mRNA, complete cds. 11/11 None
SNAP00000000532 ENSEMBL cdna:SNAP chromosome:CEL140:V:7001412:7003199:1 11/11 None
GENEFINDER00000000545 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:7001412:7006363:1 11/11 None
C33G8.6 ENSEMBL cdna:known chromosome:CEL140:V:7001412:7003244:1 gene:C33G8.6 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:7001412-7003200(+) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-42
Ensembl C33G8.6
Entrez Gene 179084 Entrez gene
SwissProt O76828 EMBL-EBI
WormBase CE17496 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 AAC25857 Nuclear hormone receptor family protein 42 [Caenorhabditis elegans] ref|NP_504771.1| Nuclear Hormone Receptor family member (nhr-42) [Caenorhabditis elegans] sp|O76828|NHR42_CAEEL Nuclear hormone receptor family member nhr-42 0.0
blast AAG15132 nuclear receptor NHR-42 [Caenorhabditis elegans] 0.0
blast CAE71986 Hypothetical protein CBG19061 [Caenorhabditis briggsae] 1.0E-149
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.3E-18
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.8E-4
Sequence
Target Sequence 
>C. ELEGANS:192603_AT
aggaaaagctcctttgcgtacacttcatggttccattcattctctttgaaggtggttaca
aatccacaaacagtgacttattctacctgccaagtggagatttcattgatgagaacagaa
tcgaagagtactacagtaatccggatgaccaaaatgataatagcgcaaaatctgctgcgg
aagtttttcgaccctactggaagttaaacaagcaaacgctcaagacccatttagatgatg
ttcagctggatcttcccgaatttttgttcatcactgcgttaatatatttcgatgatggac
tcctagaccaaaacgaagaatgtattgaagtttgcaaacagatgaaagcaaaaataatcg
aagaactgactgattacgagaaaaacgttcggatcaacgaagatcattcgtatcgagttg
gtcagattataatggttctacacggtattcaacgtac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGGAAAAGCTCCTTTGCGTACACTT 656 53 536 Antisense
TTTGCGTACACTTCATGGTTCCATT 486 667 548 Antisense
TCATGGTTCCATTCATTCTCTTTGA 261 623 560 Antisense
AACAGTGACTTATTCTACCTGCCAA 204 135 604 Antisense
GCGCAAAATCTGCTGCGGAAGTTTT 440 285 698 Antisense
GCAAACGCTCAAGACCCATTTAGAT 543 315 747 Antisense
ATGTTCAGCTGGATCTTCCCGAATT 46 47 773 Antisense
GAATTTTTGTTCATCACTGCGTTAA 433 325 793 Antisense
TTTCGATGATGGACTCCTAGACCAA 478 661 822 Antisense
AGATCATTCGTATCGAGTTGGTCAG 587 63 936 Antisense
TGGTTCTACACGGTATTCAACGTAC 355 549 968 Antisense
Sequence Source Affymetrix Proprietary Database