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[193530_at] Zinc finger, C4 type (two domains)

Description T15D6.6 /REP_DB=WormBase Gene ID /WP=CE13690 /GEN=nhr-77 /TR=O02316 /GB=CAB05622.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_total > 70      4grp_total > 0      6grp_cgc > 85      6grp_cgc_sub > 04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 23
1 2 3 4 range
A 4.4
(3)
A 		3.1
(0.5)
A 		1.3
(-3)
A 		3.1
(0.5)
A 		3
B 2.7
(-2.6)
A 		1.3
(-3)
A 		20.1
(2.2)
A 		23.1
(3)
A 		22
C 0.6
(-3)
A 		1.9
(-2.3)
A 		1.4
(-2.6)
A 		12.3
(3)
A 		12
avr 2.6
(-2.7) 		2.1
(-3) 		7.6
(0.1) 		12.8
(3) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 33
1 2 3 4 5 6 range
A 5.3
(-2.1)
A 		4.3
(-2.4)
A 		10.4
(-0.5)
A 		20.5
(2.7)
A 		21.4
(3)
A 		2.5
(-3)
A 		19
B 9.4
(-1.7)
A 		14.7
(-0.7)
A 		9.7
(-1.6)
A 		34
(3)
A 		2.3
(-3)
A 		14.8
(-0.6)
A 		32
C 0.6
(-3)
A 		3.7
(-1.7)
A 		14.9
(3)
A 		1.9
(-2.5)
A 		2.4
(-2.2)
A 		1.9
(-2.5)
A 		14
avr 5.1
(-3) 		7.6
(-1.9) 		11.7
(-0.1) 		18.8
(3) 		8.7
(-1.4) 		6.4
(-2.4) 		14
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5
1 2 3 4 range
A 1.6
(3)
A 		0.7
(-1.5)
A 		0.4
(-3)
A 		0.5
(-2.5)
A 		1
B 0.9
(-2.2)
A 		0.3
(-3)
A 		4.7
(2.7)
A 		4.9
(3)
A 		5
C 0.2
(-3)
A 		0.5
(-2.1)
A 		0.5
(-2.1)
A 		2.1
(3)
A 		2
avr 0.9
(-1.8) 		0.5
(-3) 		1.9
(1.2) 		2.5
(3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9
1 2 3 4 5 6 range
A 1
(-2.6)
A 		1.5
(-2.1)
A 		2.3
(-1.3)
A 		5.2
(1.7)
A 		6.5
(3)
A 		0.6
(-3)
A 		6
B 3.3
(-1.3)
A 		4.9
(-0.1)
A 		2.3
(-2)
A 		9
(3)
A 		1
(-3)
A 		5.5
(0.4)
A 		8
C 0.2
(-3)
A 		1.1
(-1.5)
A 		3.8
(3)
A 		0.4
(-2.7)
A 		0.8
(-2)
A 		0.6
(-2.3)
A 		4
avr 1.5
(-3) 		2.5
(-1.2) 		2.8
(-0.7) 		4.9
(3) 		2.8
(-0.7) 		2.2
(-1.8) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193530_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1204
Sequence Type Exemplar sequence
Representative Public ID T15D6.6 NCBI
Target Description T15D6.6 /REP_DB=WormBase Gene ID /WP=CE13690 /GEN=nhr-77 /TR=O02316 /GB=CAB05622.1 /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_060736(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060736 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-77) (nhr-77) mRNA, complete cds. 10/11 None
SNAP00000012745 ENSEMBL cdna:SNAP chromosome:CEL140:I:12392451:12393853:-1 10/11 None
GENEFINDER00000012755 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12392451:12393630:-1 10/11 None
T15D6.6 ENSEMBL cdna:known chromosome:CEL140:I:12392451:12393853:-1 gene:T15D6.6 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_060748 1/11 Cross Hyb Matching Probes A 
E03H4.6 1/11 Cross Hyb Matching Probes A 
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:12392381-12393784(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-77
Ensembl T15D6.6
Entrez Gene 191726 Entrez gene
SwissProt O02316 EMBL-EBI
WormBase CE32209 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 CAB05622 Hypothetical protein T15D6.6 [Caenorhabditis elegans] ref|NP_493137.2| Nuclear Hormone Receptor family member (nhr-77) [Caenorhabditis elegans] 0.0
blast CAB05622 Hypothetical protein T15D6.6 [Caenorhabditis elegans] ref|NP_493137.2| Nuclear Hormone Receptor family member (nhr-77) [Caenorhabditis elegans] 1.0E-179
blast CAB05622 Hypothetical protein T15D6.6 [Caenorhabditis elegans] ref|NP_493137.2| Nuclear Hormone Receptor family member (nhr-77) [Caenorhabditis elegans] 1.0E-163
blast CAB04030 Hypothetical protein E03H4.6 [Caenorhabditis elegans] ref|NP_493149.1| E03H4.6 [Caenorhabditis elegans] 1.0E-154
blast CAB04030 Hypothetical protein E03H4.6 [Caenorhabditis elegans] ref|NP_493149.1| E03H4.6 [Caenorhabditis elegans] 1.0E-153
blast CAB05462 Hypothetical protein C54C8.1 [Caenorhabditis elegans] ref|NP_493156.2| C54C8.1 [Caenorhabditis elegans] 1.0E-130
blast CAB04030 Hypothetical protein E03H4.6 [Caenorhabditis elegans] ref|NP_493149.1| E03H4.6 [Caenorhabditis elegans] 1.0E-125
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.2E-6
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.5E-13
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.3E-5
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.2E-6
Sequence
Target Sequence 
>C. ELEGANS:193530_AT
ttactcaattcaacatccataaatcaaaatacattgaatataaagtcagtggaagagttt
ttggagataacaagtgttcagaataagctagcagctgaattatgcaaaacttgtcctgga
gtcgatttacttgataatgaggatattttgattcttcggaagtattttcaattttcaaat
gtttggattgaatcaacgtggaattatttgagggaaaataattcggttccaattgatgac
tcggaacttgacttaaaactgctgaaattcataaaccaagtgaaatcaacgcttcttgtc
tcattttcccagttgaaattcaatactatcgagttcgcagcattcaaatcaatttgcatc
tggaaattggtgtaccatgagaccagccgagccatgaagattattgcacaggaacattat
gaaagtgttatgaaggcattaaacgattattatcagacttacacatcta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTACTCAATTCAACATCCATAAATC 266 683 547 Antisense
AAGTGTTCAGAATAAGCTAGCAGCT 120 157 618 Antisense
TGAATTATGCAAAACTTGTCCTGGA 159 577 642 Antisense
AATTCGGTTCCAATTGATGACTCGG 256 177 766 Antisense
GGAACTTGACTTAAAACTGCTGAAA 258 529 789 Antisense
GTGAAATCAACGCTTCTTGTCTCAT 167 483 826 Antisense
TCTTGTCTCATTTTCCCAGTTGAAA 348 619 840 Antisense
TGGTGTACCATGAGACCAGCCGAGC 451 553 914 Antisense
GAGACCAGCCGAGCCATGAAGATTA 114 395 925 Antisense
GCCATGAAGATTATTGCACAGGAAC 468 281 937 Antisense
GATTATTATCAGACTTACACATCTA 343 429 991 Antisense
Sequence Source Affymetrix Proprietary Database