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[175726_s_at] Zinc finger, C4 type (two domains)

Description g10197966 /REP_DB=GenBank Identifier /GB=AF273769.1 /PROTEIN_GB=AAG15118.1 /CHR=X /FEA=Mapped Transcript /DEF=nuclear receptor NHR-3
Cluster 6grp_highest_10_10 > 94      6grp_high1_10_10 > 59      4grp_highest_8_8 > 38      4grp_high_8_8 > 03      6grp_highest_nonorm > 77      6grp_total > 49      4grp_total > 13      6grp_highest_sub > Cu      6grp_cgc > 18      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 717
1 2 3 4 range
A 774.8
(1.6)
P 		391.9
(-3)
P 		438.2
(-2.4)
P 		886.2
(3)
P 		494
B 722.5
(-0.5)
P 		546.6
(-2.2)
P 		461.5
(-3)
P 		1100
(3)
P 		639
C 791.1
(-0.3)
P 		571.8
(-2.5)
P 		524.5
(-3)
P 		1108.8
(3)
P 		584
avr 762.8
(0.1) 		503.4
(-2.7) 		474.7
(-3) 		1031.7
(3) 		557

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1145
1 2 3 4 5 6 range
A 1592.7
(2.7)
P 		1354.6
(0.9)
P 		969
(-1.9)
P 		822.4
(-3)
P 		1635.2
(3)
P 		1562.4
(2.5)
P 		813
B 1794.1
(3)
P 		1597.7
(1.5)
P 		997.1
(-3)
P 		1103.4
(-2.2)
P 		1192.4
(-1.5)
P 		1761.3
(2.8)
P 		797
C 1795.9
(2)
P 		1536.3
(0.6)
P 		902.1
(-3)
P 		1281.3
(-0.9)
P 		1279.8
(-0.9)
P 		1967.7
(3)
P 		1066
avr 1727.6
(2.7) 		1496.2
(1) 		956.1
(-3) 		1069
(-2.2) 		1369.1
(0.1) 		1763.8
(3) 		808
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 197
1 2 3 4 range
A 282.1
(3)
P 		85.1
(-3)
P 		114.6
(-2.1)
P 		129.7
(-1.6)
P 		197
B 230.4
(2.8)
P 		135
(-1.7)
P 		106.9
(-3)
P 		234.4
(3)
P 		128
C 261.9
(3)
P 		164.4
(-3)
P 		182.8
(-1.9)
P 		187
(-1.6)
P 		98
avr 258.1
(3) 		128.2
(-3) 		134.8
(-2.7) 		183.7
(-0.4) 		130

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 457
1 2 3 4 5 6 range
A 293.6
(-1.2)
P 		481.8
(2.8)
P 		211
(-2.9)
P 		208.6
(-3)
P 		493.4
(3)
P 		380.4
(0.6)
P 		285
B 624.3
(2.5)
P 		531.8
(1.2)
P 		242.1
(-3)
P 		292.3
(-2.3)
P 		484.5
(0.5)
P 		656.8
(3)
P 		415
C 665.6
(3)
P 		468.8
(0.3)
P 		229.6
(-3)
P 		257.7
(-2.6)
P 		414.1
(-0.5)
P 		658.7
(2.9)
P 		436
avr 527.8
(2.3) 		494.1
(1.7) 		227.6
(-3) 		252.9
(-2.6) 		464
(1.2) 		565.3
(3) 		338
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175726_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20021
Sequence Type Exemplar sequence
Representative Public ID 10197966 NCBI
Target Description g10197966 /REP_DB=GenBank Identifier /GB=AF273769.1 /PROTEIN_GB=AAG15118.1 /CHR=X /FEA=Mapped Transcript /DEF=nuclear receptor NHR-3
Cluster Evidence This cluster is supported by a Mapped Transcript.
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_078022(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078022 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-3) (nhr-3) mRNA, complete cds. 11/11 A 
H01A20.1.1 ENSEMBL cdna:known chromosome:CEL140:X:14558423:14561346:1 gene:H01A20.1 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
chrX:14558420-14561347(+) 97.88 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-3
Ensembl H01A20.1
Entrez Gene 181551 Entrez gene
SwissProt Q9XTJ4 EMBL-EBI
WormBase CE18798 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
3707 steroid hormone receptor 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 CAA16168 Hypothetical protein H01A20.1 [Caenorhabditis elegans] ref|NP_510423.1| Nuclear Hormone Receptor family member (nhr-3) [Caenorhabditis elegans] gb|AAG15118.1| nuclear receptor NHR-3 [Caenorhabditis elegans] gb|AAD03680.1| nuclear receptor NHR-3 [Caenorhabditis elegans] sp|Q9XTJ4|NHR3_CAEEL Nuclear hormone receptor family member nhr-3 0.0
blast CAE63197 Hypothetical protein CBG07552 [Caenorhabditis briggsae] 0.0
blast AAF39914 Nuclear hormone receptor family protein 88, isoform a [Caenorhabditis elegans] ref|NP_001022235.1| Nuclear Hormone Receptor family member (nhr-88) [Caenorhabditis elegans] 5.0E-44
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.2E-30
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 9.9E-40
Sequence
Target Sequence 
>C. ELEGANS:175726_S_AT
acttcaccttttttgtatacaccagcctacctacagtaattcttattactcgaatagctt
gattatgttgtcatacttcatttcaatactgtcagtgtttcattgtgacgggtacacaca
ctttctacacattgattaattatattaattaattgatctgagcttctccttatctctcat
ttttttctccaataatttcaatttcttctgtcttcccactcggtctcgtgtttgtccaga
gttgccaaactattgttacctca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACTTCACCTTTTTTGTATACACCAG 322 103 1430 Antisense
TATACACCAGCCTACCTACAGTAAT 234 657 1445 Antisense
GTTGTCATACTTCATTTCAATACTG 491 437 1496 Antisense
TCAGTGTTTCATTGTGACGGGTACA 589 623 1521 Antisense
GTGACGGGTACACACACTTTCTACA 197 481 1534 Antisense
ACACACACTTTCTACACATTGATTA 545 111 1543 Antisense
ATTGATCTGAGCTTCTCCTTATCTC 336 5 1581 Antisense
TCTCTCATTTTTTTCTCCAATAATT 216 613 1602 Antisense
AATAATTTCAATTTCTTCTGTCTTC 559 171 1620 Antisense
GGTCTCGTGTTTGTCCAGAGTTGCC 329 503 1651 Antisense
GAGTTGCCAAACTATTGTTACCTCA 547 397 1668 Antisense
Sequence Source GenBank