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[193582_at] Zinc finger, C4 type (two domains)

Description K01H12.3 /REP_DB=WormBase Gene ID /WP=CE03455 /GEN=nhr-38 /TR=Q21104 /GB=CAA92473.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_high1_10_10 > 18      4grp_high_8_8 > 21      6grp_total > 06      4grp_total > 18      6grp_cgc > 11      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 228
1 2 3 4 range
A 39.2
(-3)
M 		88.9
(-1.3)
P 		79.8
(-1.6)
P 		215.9
(3)
P 		177
B 68.7
(-2.9)
P 		124.5
(-0.6)
P 		66.8
(-3)
M 		210
(3)
P 		143
C 64.5
(-2.7)
P 		139.6
(-0.6)
P 		52.3
(-3)
P 		267.5
(3)
P 		215
avr 57.5
(-3) 		117.7
(-0.9) 		66.3
(-2.7) 		231.1
(3) 		174

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 162
1 2 3 4 5 6 range
A 142.9
(3)
P 		53.1
(-2.4)
P 		94.6
(0.1)
P 		42.6
(-3)
A 		126.5
(2)
P 		62.1
(-1.8)
P 		100
B 189.4
(3)
P 		98.7
(-0.4)
P 		74.8
(-1.2)
P 		37.2
(-2.6)
P 		60.3
(-1.8)
P 		27.5
(-3)
P 		162
C 104
(3)
P 		70
(-0.1)
P 		93.6
(2)
P 		39
(-3)
P 		75.9
(0.4)
P 		63
(-0.8)
P 		65
avr 145.4
(3) 		73.9
(-1.1) 		87.7
(-0.3) 		39.6
(-3) 		87.6
(-0.3) 		50.9
(-2.4) 		106
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 31
1 2 3 4 range
A 14.3
(-3)
M 		19.3
(-1.3)
P 		20.9
(-0.7)
P 		31.6
(3)
P 		17
B 21.9
(-1.7)
P 		30.8
(0.1)
P 		15.5
(-3)
M 		44.8
(3)
P 		29
C 21.3
(-2.3)
P 		40.1
(1.9)
P 		18.2
(-3)
P 		45.1
(3)
P 		27
avr 19.2
(-2.7) 		30.1
(0.2) 		18.2
(-3) 		40.5
(3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 58
1 2 3 4 5 6 range
A 26.3
(0.4)
P 		18.9
(-1.2)
P 		20.6
(-0.9)
P 		10.8
(-3)
A 		38.2
(3)
P 		15.1
(-2.1)
P 		27
B 65.9
(3)
P 		32.9
(-0.5)
P 		18.2
(-2.1)
P 		9.9
(-3)
P 		24.5
(-1.4)
P 		10.3
(-3)
P 		56
C 38.5
(3)
P 		21.4
(-0.3)
P 		23.8
(0.1)
P 		7.8
(-3)
P 		24.6
(0.3)
P 		21.1
(-0.4)
P 		31
avr 43.6
(3) 		24.4
(-0.4) 		20.9
(-1) 		9.5
(-3) 		29.1
(0.4) 		15.5
(-1.9) 		34
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193582_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9195
Sequence Type Exemplar sequence
Representative Public ID K01H12.3 NCBI
Target Description K01H12.3 /REP_DB=WormBase Gene ID /WP=CE03455 /GEN=nhr-38 /TR=Q21104 /GB=CAA92473.1 /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_069327(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069327 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-38) (nhr-38) mRNA, complete cds. 11/11 None
SNAP00000037361 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9710207:9712277:1 11/11 None
GENEFINDER00000037363 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9710835:9712277:1 11/11 None
K01H12.3 ENSEMBL cdna:known chromosome:CEL140:IV:9710835:9712277:1 gene:K01H12.3 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:9710840-9712283(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-38
Ensembl K01H12.3
Entrez Gene 191720 Entrez gene
SwissProt Q21104 EMBL-EBI
WormBase CE03455 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
4879 ligand-dependent nuclear receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA92473 Hypothetical protein K01H12.3 [Caenorhabditis elegans] ref|NP_501728.1| Nuclear Hormone Receptor family member (nhr-38) [Caenorhabditis elegans] 0.0
blast CAE74767 Hypothetical protein CBG22596 [Caenorhabditis briggsae] 1.0E-115
blast AAF82307 nuclear receptor FTZ-F1 protein [Aedes aegypti] 3.0E-16
blast AAF82307 nuclear receptor FTZ-F1 protein [Aedes aegypti] 6.0E-16
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.3E-20
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.3E-20
Sequence
Target Sequence 
>C. ELEGANS:193582_AT
gatttcccgatcaacaactcgtacaaacttgaaaatttctctccaccaagaatacgaaat
tatgcgaagaatatcaactggatctcccttgatcatgcaagttatcgaacatttttacgc
acactttgggagcttggataataatttcatgagcgacccactcggtgacatattcctatt
ggtttttgtctttgaagcatgtgttttgactgctacaaaaggtggaatccaactagatag
actgtttctgccaaatatggtccatattgatttgagtgagcaaccatttttggagtttat
ggagtgtgagcaacatgtcaatttgaacccatacagaaacattctgaattcatttagttt
ccttgttcaattggtatcacgatcgtttcaatcatgcaatttcgatgaaccacttttatc
cattttattctataaatgcataacggaagcagttccaatcaattttcgacattgttttgc
tgatgtgaatcgggatagtcttttgacagatttgaacagagtagatcctgtttcatttga
acaaatccagaacacatctgcccaaattcatcaag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATTTCCCGATCAACAACTCGTACA 103 429 375 Antisense
TCAACTGGATCTCCCTTGATCATGC 434 631 448 Antisense
TTTTACGCACACTTTGGGAGCTTGG 299 673 487 Antisense
TAATTTCATGAGCGACCCACTCGGT 652 631 516 Antisense
ACCCACTCGGTGACATATTCCTATT 604 89 530 Antisense
TCCTATTGGTTTTTGTCTTTGAAGC 151 593 548 Antisense
GACTGTTTCTGCCAAATATGGTCCA 633 375 614 Antisense
AATTCATTTAGTTTCCTTGTTCAAT 130 177 721 Antisense
GTATCACGATCGTTTCAATCATGCA 281 443 748 Antisense
GAACCACTTTTATCCATTTTATTCT 107 341 781 Antisense
AACACATCTGCCCAAATTCATCAAG 369 135 925 Antisense
Sequence Source Affymetrix Proprietary Database