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[192542_at] Zinc finger, C4 type (two domains)

Description R07B7.15 /REP_DB=WormBase Gene ID /WP=CE06277 /TR=Q21805 /GB=CAB00124.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_total > 24      4grp_total > 14      6grp_cgc > 31      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 151
1 2 3 4 range
A 83.3
(2.1)
A 		36.6
(-3)
A 		40.3
(-2.6)
A 		91.2
(3)
P 		55
B 86.7
(3)
M 		31.9
(-1.7)
A 		16.3
(-3)
A 		76.3
(2.1)
A 		70
C 100.1
(0.8)
P 		5.7
(-3)
A 		34.8
(-1.8)
A 		156.7
(3)
P 		151
avr 90
(1.7) 		24.7
(-3) 		30.5
(-2.6) 		108.1
(3) 		83

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 138
1 2 3 4 5 6 range
A 140.3
(3)
P 		82
(0.3)
A 		91.2
(0.7)
P 		50.4
(-1.1)
A 		18.9
(-2.6)
A 		10.1
(-3)
A 		130
B 139.2
(3)
P 		83.9
(-0.1)
P 		55.7
(-1.7)
A 		33
(-3)
A 		73.3
(-0.7)
P 		51.5
(-2)
A 		106
C 132.3
(2.5)
P 		144.7
(3)
P 		83.3
(0.3)
A 		80
(0.2)
A 		6.7
(-3)
A 		26.1
(-2.2)
A 		138
avr 137.3
(3) 		103.5
(1.1) 		76.7
(-0.4) 		54.5
(-1.6) 		33
(-2.8) 		29.2
(-3) 		108
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 32
1 2 3 4 range
A 30.3
(3)
A 		7.9
(-3)
A 		10.5
(-2.3)
A 		13.4
(-1.5)
P 		22
B 27.6
(3)
M 		7.9
(-2)
A 		3.8
(-3)
A 		16.3
(0.2)
A 		24
C 33.1
(3)
P 		1.6
(-3)
A 		12.1
(-1)
A 		26.4
(1.7)
P 		32
avr 30.3
(3) 		5.8
(-3) 		8.8
(-2.3) 		18.7
(0.2) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 47
1 2 3 4 5 6 range
A 25.9
(2.3)
P 		29.1
(3)
A 		19.9
(0.9)
P 		12.8
(-0.7)
A 		5.7
(-2.3)
A 		2.5
(-3)
A 		27
B 48.4
(3)
P 		27.9
(-0.1)
P 		13.5
(-2.3)
A 		8.7
(-3)
A 		29.8
(0.2)
P 		19.2
(-1.4)
A 		40
C 49
(3)
P 		44.1
(2.4)
P 		21.2
(-0.6)
A 		16.1
(-1.2)
A 		2.2
(-3)
A 		8.7
(-2.2)
A 		47
avr 41.1
(3) 		33.7
(1.6) 		18.2
(-1.4) 		12.5
(-2.5) 		12.6
(-2.5) 		10.1
(-3) 		31
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192542_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13212
Sequence Type Exemplar sequence
Representative Public ID R07B7.15 NCBI
Target Description R07B7.15 /REP_DB=WormBase Gene ID /WP=CE06277 /TR=Q21805 /GB=CAB00124.1 /SUBMIT=HINXTON /CHR=5 /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_073633(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073633 NCBI Caenorhabditis elegans R07B7.15 (R07B7.15) mRNA, complete cds. 10/11 None
GENEFINDER00000027109 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12094652:12098483:1 11/11 None
R07B7.15 ENSEMBL cdna:known chromosome:CEL140:V:12096962:12098483:1 gene:R07B7.15 10/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000027095 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:12096961-12098483(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-208
Ensembl R07B7.15
Entrez Gene 187662 Entrez gene
SwissProt Q21805 EMBL-EBI
WormBase CE35597 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 CAB00124 Hypothetical protein R07B7.15 [Caenorhabditis elegans] ref|NP_506034.2| R07B7.15 [Caenorhabditis elegans] 0.0
blast CAB00122 Hypothetical protein R07B7.13 [Caenorhabditis elegans] ref|NP_506033.1| R07B7.13 [Caenorhabditis elegans] 0.0
blast CAB00122 Hypothetical protein R07B7.13 [Caenorhabditis elegans] ref|NP_506033.1| R07B7.13 [Caenorhabditis elegans] 1.0E-133
blast CAB00123 Hypothetical protein R07B7.14 [Caenorhabditis elegans] ref|NP_506035.1| R07B7.14 [Caenorhabditis elegans] 1.0E-109
blast CAB00123 Hypothetical protein R07B7.14 [Caenorhabditis elegans] ref|NP_506035.1| R07B7.14 [Caenorhabditis elegans] 1.0E-107
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.2E-38
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.3E-22
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.1E-46
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.3E-11
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.2E-12
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 8.9E-28
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.3E-22
Sequence
Target Sequence 
>C. ELEGANS:192542_AT
gaaatcctcaaagctcatccaattcttgaaatgtcgaaaattccgaacttgtcttttcaa
ccaaaccaactcttccctgatcatgctggatttgctcataacgcaagcctagctgccttg
gagtttacaaaaatgcttgatatatttccaaaattatcaattgatactgttcaaaaactt
gtcagacatggattatttatgtgtggatcaatgatgacgagcagaagatctattcaaaag
ttcaattcagatacattacgacgtacagatggaacaatttctggaaaaccggcaaaaact
gtctccgatctttttgctcaagatcaaaaaataattgaacgagaacggaacagatttgct
caatgtcttctgacttattgcttgagggaatatgcagaaaataatggaccatctagattt
gcatcagtattatcaataatttcatctatggaactacaacaaaaggaagaaaaaagcttt
aacattctgctccgtgcgtcttttcccgatgcaattgtcttgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAATCCTCAAAGCTCATCCAATTC 59 363 565 Antisense
TGTCTTTTCAACCAAACCAACTCTT 9 559 614 Antisense
AACTCTTCCCTGATCATGCTGGATT 101 141 632 Antisense
TGCTCATAACGCAAGCCTAGCTGCC 241 581 657 Antisense
AGCCTAGCTGCCTTGGAGTTTACAA 623 83 670 Antisense
AACCGGCAAAAACTGTCTCCGATCT 43 147 851 Antisense
TGTCTCCGATCTTTTTGCTCAAGAT 706 557 864 Antisense
GATTTGCTCAATGTCTTCTGACTTA 403 427 917 Antisense
GTCTTCTGACTTATTGCTTGAGGGA 341 469 929 Antisense
AAAGCTTTAACATTCTGCTCCGTGC 90 125 1037 Antisense
TCTTTTCCCGATGCAATTGTCTTGG 369 615 1063 Antisense
Sequence Source Affymetrix Proprietary Database