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[192526_at] Zinc finger, C4 type (two domains)

Description C54E10.5 /REP_DB=WormBase Gene ID /WP=CE19772 /TR=O45315 /GB=CAB03998.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_high1_10_10 > 49      4grp_high_8_8 > 06      6grp_total > 90      4grp_total > 02      6grp_cgc > 96      6grp_high1_sub > Cu      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 250
1 2 3 4 range
A 50.8
(-2.5)
P 		47.8
(-2.6)
P 		35.5
(-3)
P 		219.3
(3)
P 		184
B 62.1
(-3)
P 		64.5
(-2.9)
A 		85.4
(-2.3)
P 		270
(3)
P 		208
C 51.6
(-3)
M 		76.8
(-2.4)
P 		56.5
(-2.9)
P 		285.8
(3)
P 		234
avr 54.8
(-3) 		63
(-2.8) 		59.1
(-2.9) 		258.4
(3) 		204

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 98
1 2 3 4 5 6 range
A 39.8
(-1.7)
A 		52.8
(0.1)
P 		30.3
(-3)
P 		61.9
(1.4)
P 		68
(2.2)
P 		73.5
(3)
P 		43
B 75.9
(3)
P 		70.9
(2.2)
P 		37.9
(-3)
P 		47.2
(-1.5)
P 		74
(2.7)
P 		49.4
(-1.2)
P 		38
C 35.4
(-1.6)
A 		53.2
(-0.5)
P 		13
(-3)
A 		110.8
(3)
P 		23.2
(-2.4)
A 		83.9
(1.3)
P 		98
avr 50.4
(0) 		59
(1.1) 		27.1
(-3) 		73.3
(3) 		55.1
(0.6) 		68.9
(2.4) 		46
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 48
1 2 3 4 range
A 18.5
(-0.6)
P 		10.4
(-2.7)
P 		9.3
(-3)
P 		32.1
(3)
P 		23
B 19.8
(-2.4)
P 		15.9
(-3)
A 		19.8
(-2.4)
P 		57.5
(3)
P 		42
C 17.1
(-3)
M 		22.1
(-2)
P 		19.7
(-2.5)
P 		48.2
(3)
P 		31
avr 18.5
(-2.5) 		16.1
(-3) 		16.3
(-3) 		45.9
(3) 		30

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 7.3
(-2.7)
A 		18.8
(2.3)
P 		6.6
(-3)
P 		15.7
(0.9)
P 		20.5
(3)
P 		17.9
(1.9)
P 		14
B 26.4
(1.9)
P 		23.6
(1.1)
P 		9.2
(-3)
P 		12.5
(-2.1)
P 		30.1
(3)
P 		18.4
(-0.4)
P 		21
C 13.1
(-0.6)
A 		16.2
(0.1)
P 		3.3
(-3)
A 		22.3
(1.6)
P 		7.5
(-2)
A 		28.1
(3)
P 		25
avr 15.6
(0.7) 		19.5
(2.2) 		6.4
(-3) 		16.8
(1.1) 		19.4
(2.2) 		21.5
(3) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192526_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14679
Sequence Type Exemplar sequence
Representative Public ID C54E10.5 NCBI
Target Description C54E10.5 /REP_DB=WormBase Gene ID /WP=CE19772 /TR=O45315 /GB=CAB03998.1 /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_075272(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075272 NCBI Caenorhabditis elegans C54E10.5 (C54E10.5) mRNA, complete cds. 10/11 A 
GENEFINDER00000040266 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:18798679:18803392:-1 11/11 None
C54E10.5 ENSEMBL cdna:known chromosome:CEL140:V:18798679:18803392:-1 gene:C54E10.5 10/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000040253 1/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:18798678-18803392(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-170
Ensembl C54E10.5
Entrez Gene 183795 Entrez gene
SwissProt O45315 EMBL-EBI
WormBase CE36429 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 CAB03998 Hypothetical protein C54E10.5 [Caenorhabditis elegans] ref|NP_507673.2| C54E10.5 [Caenorhabditis elegans] 0.0
blast CAE73304 Hypothetical protein CBG20729 [Caenorhabditis briggsae] 0.0
blast CAB04316 Hypothetical protein F36D3.2 [Caenorhabditis elegans] ref|NP_507179.3| Nuclear Hormone Receptor family member (nhr-54) [Caenorhabditis elegans] sp|O45460|NHR54_CAEEL Nuclear hormone receptor family member nhr-54 1.0E-168
blast CAB03998 Hypothetical protein C54E10.5 [Caenorhabditis elegans] ref|NP_507673.2| C54E10.5 [Caenorhabditis elegans] 1.0E-150
blast CAB04316 Hypothetical protein F36D3.2 [Caenorhabditis elegans] ref|NP_507179.3| Nuclear Hormone Receptor family member (nhr-54) [Caenorhabditis elegans] sp|O45460|NHR54_CAEEL Nuclear hormone receptor family member nhr-54 1.0E-137
blast CAA16299 Hypothetical protein Y17D7B.1 [Caenorhabditis elegans] ref|NP_507672.1| Y17D7B.1 [Caenorhabditis elegans] 1.0E-128
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.8E-9
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.3E-9
Sequence
Target Sequence 
>C. ELEGANS:192526_AT
caatgtctgctcaaatgttcggtcaaaaatgctatgacgaaaaaattcacgttcacaatc
accaatttgccgcgagatttggcaattatcatatcgattattcaaacgtgtcggatcacg
gctttgagcggtttaacaactttattttcagcccaaaagacccattattggtgtcaaaat
gctccaaattttacgtagaatccaaatttcttactgaaaaattcaattttttcagtgtat
tcggtggaaaaatgatcagatattttgacataatcgtgaagccatacctggaacttaatc
tctctgaaactgaagtcacctatattttatgtcaaatcgtctggaattatgcaggaagac
ggcttcaaggacaaacccaagcggctggagaacgatttttagaggaaatttccaataatt
tgcatagttactatgaagaagctgctagaaaagaggaaaatccgaaaaactatgcgtcaa
ggcttacgaaaatgatgcaaattgtcaatgaaatgctgagtattcagttgaaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAATGTCTGCTCAAATGTTCGGTCA 174 183 758 Antisense
CAAATGTTCGGTCAAAAATGCTATG 236 193 769 Antisense
AAAAATTCACGTTCACAATCACCAA 335 129 798 Antisense
ACGTTCACAATCACCAATTTGCCGC 57 95 806 Antisense
CACAATCACCAATTTGCCGCGAGAT 590 193 811 Antisense
GCCGCGAGATTTGGCAATTATCATA 493 285 826 Antisense
ATCATATCGATTATTCAAACGTGTC 380 29 845 Antisense
AACGTGTCGGATCACGGCTTTGAGC 187 145 862 Antisense
GGATCACGGCTTTGAGCGGTTTAAC 524 511 870 Antisense
GCTTTGAGCGGTTTAACAACTTTAT 315 303 878 Antisense
GAAATGCTGAGTATTCAGTTGAAAC 397 361 1267 Antisense
Sequence Source Affymetrix Proprietary Database