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[192543_at] Zinc finger, C4 type (two domains)

Description Y17D7A.1 /REP_DB=WormBase Gene ID /WP=CE16586 /TR=O45905 /GB=CAA16291.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_total > 22      4grp_total > 23      6grp_cgc > 61      6grp_cgc_sub > De      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 87
1 2 3 4 range
A 75
(3)
A 		9.3
(-3)
A 		33.7
(-0.8)
A 		74.1
(2.9)
P 		66
B 96
(3)
A 		38.5
(-2)
A 		37.1
(-2.1)
A 		27.2
(-3)
A 		69
C 52.6
(-1.4)
A 		61.6
(-0.4)
A 		39
(-3)
A 		91.3
(3)
M 		52
avr 74.5
(3) 		36.5
(-3) 		36.6
(-3) 		64.2
(1.4) 		38

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 56
1 2 3 4 5 6 range
A 41.9
(-0.1)
A 		25.6
(-2.2)
A 		50.8
(1.1)
A 		65.8
(3)
A 		37.3
(-0.7)
A 		19.2
(-3)
A 		47
B 22.8
(-0.9)
A 		47.8
(3)
A 		9.6
(-3)
A 		17.3
(-1.8)
A 		28.5
(-0)
A 		26.2
(-0.4)
A 		38
C 62
(3)
A 		52.5
(1.9)
A 		58.7
(2.6)
A 		12.4
(-3)
A 		27.7
(-1.1)
A 		14.1
(-2.8)
A 		50
avr 42.2
(3) 		42
(2.9) 		39.7
(2.3) 		31.8
(0.2) 		31.2
(0.1) 		19.8
(-3) 		22
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 29
1 2 3 4 range
A 27.3
(3)
A 		2
(-3)
A 		8.8
(-1.4)
A 		10.8
(-0.9)
P 		25
B 30.6
(3)
A 		9.5
(-2.1)
A 		8.6
(-2.3)
A 		5.8
(-3)
A 		25
C 17.4
(2.6)
A 		17.7
(3)
A 		13.6
(-3)
A 		15.4
(-0.4)
M 		4
avr 25.1
(3) 		9.7
(-3) 		10.3
(-2.8) 		10.7
(-2.6) 		15

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 21
1 2 3 4 5 6 range
A 7.7
(-1.5)
A 		9.1
(-0.8)
A 		11.1
(0.2)
A 		16.7
(3)
A 		11.3
(0.3)
A 		4.7
(-3)
A 		12
B 7.9
(-0.5)
A 		15.9
(3)
A 		2.3
(-3)
A 		4.6
(-2)
A 		11.6
(1.1)
A 		9.8
(0.3)
A 		14
C 23
(3)
A 		16
(1)
A 		14.9
(0.6)
A 		2.5
(-3)
A 		9
(-1.1)
A 		4.7
(-2.4)
A 		21
avr 12.9
(2.3) 		13.7
(3) 		9.4
(-0.5) 		7.9
(-1.8) 		10.6
(0.5) 		6.4
(-3) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192543_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13284
Sequence Type Exemplar sequence
Representative Public ID Y17D7A.1 NCBI
Target Description Y17D7A.1 /REP_DB=WormBase Gene ID /WP=CE16586 /TR=O45905 /GB=CAA16291.1 /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_075280(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075280 NCBI Caenorhabditis elegans Y17D7A.1 (Y17D7A.1) mRNA, complete cds. 11/11 None
GENEFINDER00000005606 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:18849390:18853107:1 11/11 None
Y17D7A.1 ENSEMBL cdna:known chromosome:CEL140:V:18849390:18851275:1 gene:Y17D7A.1 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
chrV:18849389-18851275(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-230
Ensembl Y17D7A.1
Entrez Gene 189442 Entrez gene
SwissProt O45905 EMBL-EBI
WormBase CE16586 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
Protein Similarities
Method ID Description E-Value
blast CAE56186 Hypothetical protein CBG23808 [Caenorhabditis briggsae] 1.0E-82
blast CAA16293 Hypothetical protein Y17D7A.2 [Caenorhabditis elegans] ref|NP_507682.1| Y17D7A.2 [Caenorhabditis elegans] 1.0E-73
blast CAA16291 Hypothetical protein Y17D7A.1 [Caenorhabditis elegans] ref|NP_507681.1| Y17D7A.1 [Caenorhabditis elegans] 2.0E-62
blast CAA16291 Hypothetical protein Y17D7A.1 [Caenorhabditis elegans] ref|NP_507681.1| Y17D7A.1 [Caenorhabditis elegans] 2.0E-58
blast CAE56186 Hypothetical protein CBG23808 [Caenorhabditis briggsae] 4.0E-39
blast CAB60441 Hypothetical protein Y80D3A.4 [Caenorhabditis elegans] ref|NP_507686.2| Y80D3A.4 [Caenorhabditis elegans] 1.0E-19
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 6.6E-10
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.4E-6
Sequence
Target Sequence 
>C. ELEGANS:192543_AT
cgcatcgacctcaatattatcccaggaagagtcatcggagcttatttgtgctgtgtgctc
acagccggcacgtggaagacactttggagcagtcgcctgccgggcttgtgctgcattttt
tagacgcgcagacgccgccaaaaccacagtaaaaccgtgtaaaaaaggcggaaattgcca
aaacttgctgaataataacggatggtttgactgtaaattttgtcgacttcagaagtgtta
tgaaattggaatgaactcagcaaatttccaattcgacagggacccgattagcactaagct
cacaaatgtcccaaacagtatggaaggttttctgggccgcccgcactgtgtaatttttgt
ggacccggaagttgtccgctgcgagaaggatctcatcgattgtacagatctcttacggaa
agccgggcgga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CGCATCGACCTCAATATTATCCCAG 323 255 24 Antisense
GTCATCGGAGCTTATTTGTGCTGTG 112 467 54 Antisense
TGTGCTGTGTGCTCACAGCCGGCAC 86 555 70 Antisense
ACAGCCGGCACGTGGAAGACACTTT 86 107 84 Antisense
AAGACACTTTGGAGCAGTCGCCTGC 434 153 99 Antisense
GCATTTTTTAGACGCGCAGACGCCG 488 307 136 Antisense
CGACAGGGACCCGATTAGCACTAAG 348 245 297 Antisense
TAGCACTAAGCTCACAAATGTCCCA 327 651 312 Antisense
CCGCCCGCACTGTGTAATTTTTGTG 657 261 360 Antisense
GTTGTCCGCTGCGAGAAGGATCTCA 530 437 394 Antisense
GATCTCTTACGGAAAGCCGGGCGGA 677 415 430 Antisense
Sequence Source Affymetrix Proprietary Database