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[192419_at] Zinc finger, C4 type (two domains)

Description Y69H2.8 /REP_DB=WormBase Gene ID /WP=CE22826 /TR=Q9U1U2 /GB=CAB63405.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_total > 63      4grp_total > 19      6grp_cgc > 75      6grp_cgc_sub > 03_04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 74
1 2 3 4 range
A 40.8
(-0.6)
A 		11.2
(-3)
A 		35.5
(-1)
A 		85.1
(3)
P 		74
B 37.9
(-1.2)
A 		77.2
(3)
P 		31.6
(-1.8)
P 		20.7
(-3)
A 		57
C 34.1
(-3)
A 		51.9
(0)
A 		36.9
(-2.5)
M 		69.3
(3)
P 		35
avr 37.6
(-2.3) 		46.8
(0.1) 		34.7
(-3) 		58.4
(3) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 59
1 2 3 4 5 6 range
A 10.6
(-3)
A 		22.4
(-1.4)
A 		55.4
(3)
P 		37.5
(0.6)
A 		39.3
(0.8)
A 		21.4
(-1.6)
A 		45
B 15.8
(-1.6)
A 		32
(1)
M 		45.1
(3)
A 		6.7
(-3)
A 		38.9
(2)
A 		28.6
(0.4)
A 		38
C 10.9
(-3)
A 		39.9
(0.2)
A 		47.6
(1)
A 		65.6
(3)
A 		35.4
(-0.3)
A 		31.2
(-0.8)
A 		55
avr 12.4
(-3) 		31.4
(0.1) 		49.4
(3) 		36.6
(0.9) 		37.9
(1.1) 		27.1
(-0.6) 		37
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 14.9
(3)
A 		2.4
(-3)
A 		9.3
(0.3)
A 		12.5
(1.8)
P 		13
B 12.1
(0.1)
A 		19.1
(3)
P 		7.3
(-1.8)
P 		4.4
(-3)
A 		15
C 11.3
(-3)
A 		14.9
(3)
A 		12.8
(-0.5)
M 		11.7
(-2.3)
P 		4
avr 12.8
(3) 		12.1
(1.7) 		9.8
(-2.5) 		9.5
(-3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 14
1 2 3 4 5 6 range
A 1.9
(-3)
A 		8
(0.6)
A 		12.1
(3)
P 		9.5
(1.5)
A 		11.9
(2.9)
A 		5.2
(-1.1)
A 		10
B 5.5
(-1.4)
A 		10.7
(0.8)
M 		11
(0.9)
A 		1.8
(-3)
A 		15.8
(3)
A 		10.7
(0.8)
A 		14
C 4
(-3)
A 		12.2
(2.3)
A 		12.1
(2.3)
A 		13.2
(3)
A 		11.5
(1.9)
A 		10.5
(1.2)
A 		9
avr 3.8
(-3) 		10.3
(1.2) 		11.7
(2.1) 		8.2
(-0.2) 		13.1
(3) 		8.8
(0.2) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192419_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13035
Sequence Type Exemplar sequence
Representative Public ID Y69H2.8 NCBI
Target Description Y69H2.8 /REP_DB=WormBase Gene ID /WP=CE22826 /TR=Q9U1U2 /GB=CAB63405.1 /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_075248(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075248 NCBI Caenorhabditis elegans Y69H2.8 (Y69H2.8) mRNA, complete cds. 11/11 None
GENEFINDER00000002607 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:18700276:18709165:1 9/11 None
Y69H2.8 ENSEMBL cdna:known chromosome:CEL140:V:18702025:18703535:1 gene:Y69H2.8 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000002600 3/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:18702024-18703535(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-241
Ensembl Y69H2.8
Entrez Gene 190558 Entrez gene
SwissProt Q9U1U2 EMBL-EBI
WormBase CE22826 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 CAB63405 Hypothetical protein Y69H2.8 [Caenorhabditis elegans] ref|NP_507649.1| Y69H2.8 [Caenorhabditis elegans] 0.0
blast CAB63406 Hypothetical protein Y69H2.9 [Caenorhabditis elegans] ref|NP_507650.1| Y69H2.9 [Caenorhabditis elegans] 1.0E-170
blast CAB63405 Hypothetical protein Y69H2.8 [Caenorhabditis elegans] ref|NP_507649.1| Y69H2.8 [Caenorhabditis elegans] 1.0E-159
blast CAE73297 Hypothetical protein CBG20720 [Caenorhabditis briggsae] 6.0E-65
blast AAC25898 Hypothetical protein F38H12.3 [Caenorhabditis elegans] ref|NP_504139.1| F38H12.3 [Caenorhabditis elegans] 7.0E-58
blast CAE73297 Hypothetical protein CBG20720 [Caenorhabditis briggsae] 2.0E-57
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.7E-19
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.6E-23
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 9.5E-17
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.6E-23
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000002607 1 1225-1247
Sequence
Target Sequence 
>C. ELEGANS:192419_AT
aacctcttccgacataaactcatctctaaaactagccatcgagcatgcaaattcatgggc
tctgaaatttaatttttatgaaaatttcacggaaaaaacttcaattttatcggaatttgc
catcggatttatgctaatcgatcaggcattcaaaactgcggaagaagctgaaaatggctt
ctggctcctgcaaaatgggacttttttggtcgaaaatgagcacaaatcctactcaaaata
tgtgtctgaaatactcaactcaatagcagttccgttcaaaaatctgaaaattgaagagtt
tgagtgcgtgattttgaaaattttgctgtttttgtcaggtgggtgccgaaaaatttttaa
attttgggaaaatcctttaaaattttcagccaattccctgcaaaatcacagggatcttgc
tcctcaccgcaagtattgtttcaagctgctcacggagcaccggagccctccagaagccgg
ggaaataattttactgctcagctcaattaggtgtgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACCTCTTCCGACATAAACTCATCT 178 147 453 Antisense
AACTCATCTCTAAAACTAGCCATCG 116 141 469 Antisense
GGAATTTGCCATCGGATTTATGCTA 8 533 564 Antisense
AGCTGAAAATGGCTTCTGGCTCCTG 209 81 618 Antisense
ACTCAACTCAATAGCAGTTCCGTTC 597 89 705 Antisense
GCTGTTTTTGTCAGGTGGGTGCCGA 312 293 777 Antisense
TTCAGCCAATTCCCTGCAAAATCAC 573 687 837 Antisense
AAAATCACAGGGATCTTGCTCCTCA 557 133 854 Antisense
TGCTCCTCACCGCAAGTATTGTTTC 525 581 870 Antisense
ATTGTTTCAAGCTGCTCACGGAGCA 232 3 887 Antisense
ACTGCTCAGCTCAATTAGGTGTGTC 536 97 945 Antisense
Sequence Source Affymetrix Proprietary Database