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[192565_s_at] Zinc finger, C4 type (two domains) /// Zinc finger, C4 type (two domains)

Description Y17D7B.1 /REP_DB=WormBase Gene ID /WP=CE16590 /TR=O45910 /GB=CAA16299.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 4grp_high_8_8 > 05      6grp_total > 90      4grp_total > 01      6grp_cgc > 96      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 245
1 2 3 4 range
A 103.5
(-2.5)
P 		87.3
(-3)
A 		126.8
(-1.8)
M 		285.6
(3)
P 		198
B 147.3
(0.5)
P 		41
(-3)
A 		96.4
(-1.2)
P 		224.5
(3)
P 		184
C 81.6
(-3)
A 		109.1
(-1.8)
P 		94
(-2.5)
P 		217.8
(3)
P 		136
avr 110.8
(-1.8) 		79.1
(-3) 		105.7
(-2) 		242.6
(3) 		164

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 73
1 2 3 4 5 6 range
A 121.5
(3)
A 		111.5
(2)
P 		61.2
(-2.8)
A 		118.7
(2.7)
P 		118.2
(2.7)
P 		59.4
(-3)
A 		62
B 71.3
(-3)
A 		94.9
(-0.6)
P 		88.6
(-1.2)
A 		130.2
(3)
P 		97.8
(-0.3)
P 		92.8
(-0.8)
P 		59
C 132.7
(3)
P 		103.4
(0.2)
P 		70.1
(-3)
M 		76.8
(-2.4)
A 		83.8
(-1.7)
P 		86.3
(-1.4)
P 		63
avr 108.5
(3) 		103.3
(2.1) 		73.3
(-3) 		108.6
(3) 		99.9
(1.5) 		79.5
(-1.9) 		35
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 38
1 2 3 4 range
A 37.7
(1.9)
P 		19
(-3)
A 		33.2
(0.7)
M 		41.8
(3)
P 		23
B 47
(2.9)
P 		10.1
(-3)
A 		22.3
(-1.1)
P 		47.8
(3)
P 		38
C 27
(-3)
A 		31.4
(-0.3)
P 		32.8
(0.6)
P 		36.7
(3)
P 		10
avr 37.2
(1.7) 		20.2
(-3) 		29.4
(-0.5) 		42.1
(3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 36
1 2 3 4 5 6 range
A 22.4
(-0.9)
A 		39.6
(3)
P 		13.3
(-3)
A 		30.1
(0.8)
P 		35.7
(2.1)
P 		14.5
(-2.7)
A 		26
B 24.8
(-1.9)
A 		31.6
(0.3)
P 		21.5
(-3)
A 		34.5
(1.3)
P 		39.7
(3)
P 		34.6
(1.3)
P 		18
C 49.2
(3)
P 		31.6
(-0.1)
P 		17.8
(-2.6)
M 		15.4
(-3)
A 		27.1
(-0.9)
P 		28.9
(-0.6)
P 		34
avr 32.1
(2.2) 		34.3
(3) 		17.5
(-3) 		26.7
(0.3) 		34.2
(3) 		26
(0) 		17
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192565_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14566
Sequence Type Exemplar sequence
Representative Public ID Y17D7B.1 NCBI
Target Description Y17D7B.1 /REP_DB=WormBase Gene ID /WP=CE16590 /TR=O45910 /GB=CAA16299.1 /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(9), NM_075271(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075272 NCBI Caenorhabditis elegans C54E10.5 (C54E10.5) mRNA, complete cds. 9/11 A 
NM_075271 NCBI Caenorhabditis elegans Y17D7B.1 (Y17D7B.1) mRNA, complete cds. 11/11 None
GENEFINDER00000003523 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:18793637:18797306:1 11/11 None
SNAP00000040253 ENSEMBL cdna:SNAP chromosome:CEL140:V:18798685:18803392:-1 9/11 None
GENEFINDER00000040266 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:18798679:18803392:-1 11/11 None
Y17D7B.1 ENSEMBL cdna:known chromosome:CEL140:V:18793637:18797312:1 gene:Y17D7B.1 11/11 None
C54E10.5 ENSEMBL cdna:known chromosome:CEL140:V:18798679:18803392:-1 gene:C54E10.5 9/11 A 
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
chrV:18793636-18797312(+) 99.66 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Zinc finger, C4 type (two domains)
Gene Symbol nhr-170
nhr-231
Ensembl Y17D7B.1
C54E10.5
Entrez Gene 183795 Entrez gene
189445 Entrez gene
SwissProt O45315 EMBL-EBI
O45910 EMBL-EBI
WormBase CE36429 Wormbase
CE16590 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 CAA16299 Hypothetical protein Y17D7B.1 [Caenorhabditis elegans] ref|NP_507672.1| Y17D7B.1 [Caenorhabditis elegans] 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
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.2E-13
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:192565_S_AT
ttgacataatcgtgaagccatacctggaacttaatctctctgaaactgaagtcacctata
ttttatgtcaaatcgtctggaattatggctttaggccactttcaggcctgaaaacagatt
tttcggaatatagtcaatatggctttattttcagcccaaaagacccattattggtgtcaa
aatgctccaaattttacgtagaatccaaatttcttactgaaaaattcaattttttcagtg
tattcggtggaaaaatgatcagatattttgacataatcgtgaagccatacctggaactta
atctctctgaaactgaagtcacctatattttatgtcaaatcgtctggaattatgcaggaa
gacggcttcaaggacaaacccaagcggctggagaacgatttttagaggaaatttccaata
atttgcatagttactatgaagaagctgctagaaaagaggaaaatccgaaaaactatgcgt
caaggcttacgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTGACATAATCGTGAAGCCATACCT 414 701 857 Antisense
CCATACCTGGAACTTAATCTCTCTG 383 255 874 Antisense
ACTGAAGTCACCTATATTTTATGTC 267 95 901 Antisense
ATTTTCAGCCCAAAAGACCCATTAT 409 15 1003 Antisense
ATGCTCCAAATTTTACGTAGAATCC 113 41 1038 Antisense
GACATAATCGTGAAGCCATACCTGG 434 369 1126 Antisense
GCCATACCTGGAACTTAATCTCTCT 707 279 1140 Antisense
AACTGAAGTCACCTATATTTTATGT 49 143 1167 Antisense
GAAGACGGCTTCAAGGACAAACCCA 156 337 1214 Antisense
GACAAACCCAAGCGGCTGGAGAACG 24 353 1229 Antisense
AAAACTATGCGTCAAGGCTTACGAA 531 129 1325 Antisense
Sequence Source Affymetrix Proprietary Database