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[194132_at] Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)

Description T23H4.2 /REP_DB=WormBase Gene ID /WP=CE14120 /GEN=nhr-69 /TR=P91829 /GB=CAB05815.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)
Cluster 6grp_highest_10_10 > 27      6grp_high1_10_10 > 62      4grp_highest_8_8 > 31      4grp_high_8_8 > 05      6grp_highest_nonorm > 71      6grp_total > 53      4grp_total > 12      6grp_highest_sub > 03_04      6grp_cgc > 90      6grp_high1_sub > 03      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 972
1 2 3 4 range
A 401.5
(-1)
P 		347.9
(-1.7)
P 		247.1
(-3)
P 		712.5
(3)
P 		465
B 428.6
(-2)
P 		337.8
(-2.5)
P 		264.4
(-3)
P 		1218.8
(3)
P 		954
C 459.9
(-1.3)
P 		322.4
(-2.6)
P 		284.8
(-3)
P 		906.9
(3)
P 		622
avr 430
(-1.5) 		336
(-2.4) 		265.4
(-3) 		946.1
(3) 		681

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 173
1 2 3 4 5 6 range
A 272
(-2.1)
P 		342.6
(1.2)
P 		381.1
(3)
P 		353.3
(1.7)
P 		314.4
(-0.1)
P 		253.2
(-3)
P 		128
B 330.4
(-1.2)
P 		296.1
(-3)
P 		412.8
(3)
P 		307.4
(-2.4)
P 		354.8
(0)
P 		328.8
(-1.3)
P 		117
C 334.4
(-0.5)
P 		267.1
(-3)
P 		351.2
(0.2)
P 		308
(-1.5)
P 		426.4
(3)
P 		334.3
(-0.5)
P 		159
avr 312.3
(-2.2) 		301.9
(-3) 		381.7
(3) 		322.9
(-1.4) 		365.2
(1.8) 		305.4
(-2.7) 		80
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 198
1 2 3 4 range
A 146.2
(3)
P 		75.5
(-2.2)
P 		64.6
(-3)
P 		104.3
(-0.1)
P 		82
B 136.7
(-0.7)
P 		83.4
(-2.3)
P 		61.3
(-3)
P 		259.7
(3)
P 		198
C 152.2
(2.9)
P 		92.7
(-3)
P 		99.3
(-2.3)
P 		152.9
(3)
P 		60
avr 145
(1.3) 		83.9
(-2.5) 		75.1
(-3) 		172.3
(3) 		97

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 94
1 2 3 4 5 6 range
A 50.1
(-3)
P 		121.9
(3)
P 		83
(-0.3)
P 		89.6
(0.3)
P 		94.9
(0.7)
P 		61.6
(-2)
P 		72
B 115
(0.2)
P 		98.5
(-1.4)
P 		100.2
(-1.2)
P 		81.4
(-3)
P 		144.1
(3)
P 		122.6
(0.9)
P 		63
C 123.9
(1.9)
P 		81.5
(-1.5)
P 		89.4
(-0.8)
P 		61.9
(-3)
P 		138
(3)
P 		111.9
(0.9)
P 		76
avr 96.3
(-0.7) 		100.6
(-0.1) 		90.9
(-1.3) 		77.6
(-3) 		125.7
(3) 		98.7
(-0.4) 		48
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 194132_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.928
Sequence Type Exemplar sequence
Representative Public ID T23H4.2 NCBI
Target Description T23H4.2 /REP_DB=WormBase Gene ID /WP=CE14120 /GEN=nhr-69 /TR=P91829 /GB=CAB05815.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors, 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_060214(9)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060214 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-69) (nhr-69) mRNA, complete cds. 9/11 None
SNAP00000007944 ENSEMBL cdna:SNAP chromosome:CEL140:I:9887511:9889614:-1 9/11 None
GENEFINDER00000007946 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9887511:9891673:-1 9/11 None
T23H4.2 ENSEMBL cdna:known chromosome:CEL140:I:9887312:9889625:-1 gene:T23H4.2 9/11 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
chrI:9887617-9889545(-) 100.0 100.0
Public Domain and Genome References
Gene Title Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)
Gene Symbol nhr-69
Ensembl T23H4.2
Entrez Gene 172840 Entrez gene
SwissProt P91829 EMBL-EBI
WormBase CE32501 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.14842.1.S1_AT similar to hepatocyte nuclear factor 4 alpha cfa
CANINE_2:CFAAFFX.14847.1.S1_S_AT similar to hepatocyte nuclear factor 4 alpha cfa
DROSOPHILA_2:1640922_A_AT Hepatocyte nuclear factor 4 dm
DROSGENOME1:143535_AT Hepatocyte nuclear factor 4 dm
CHICKEN:GGA.19277.1.S1_AT hepatocyte nuclear factor 4, alpha gga
CHICKEN:GGAAFFX.26151.1.S1_AT hepatocyte nuclear factor 4, alpha gga
CHICKEN:GGAAFFX.2648.1.S1_S_AT hepatocyte nuclear factor 4, alpha gga
HG-U133_PLUS_2:216889_S_AT hepatocyte nuclear factor 4, alpha hs
HG-U133A_2:216889_S_AT hepatocyte nuclear factor 4, alpha hs
HG-FOCUS:216889_S_AT hepatocyte nuclear factor 4, alpha hs
HG-U133A:216889_S_AT hepatocyte nuclear factor 4, alpha hs
HG-U133_PLUS_2:208429_X_AT hepatocyte nuclear factor 4, alpha hs
HG-U133A:208429_X_AT hepatocyte nuclear factor 4, alpha hs
HG-U133A_2:208429_X_AT hepatocyte nuclear factor 4, alpha hs
HG-U95AV2:36723_AT hepatocyte nuclear factor 4, alpha hs
HUGENEFL:Z49825_S_AT hepatocyte nuclear factor 4, alpha hs
HUGENEFL:X87870_AT hepatocyte nuclear factor 4, alpha hs
HUGENEFL:X87871_S_AT hepatocyte nuclear factor 4, alpha hs
HG-U133_PLUS_2:214832_AT hepatocyte nuclear factor 4, alpha hs
HG-U133A_2:214832_AT hepatocyte nuclear factor 4, alpha hs
HG-U133A:214832_AT hepatocyte nuclear factor 4, alpha hs
U133_X3P:G4504442_3P_A_AT hepatocyte nuclear factor 4, alpha hs
U133_X3P:HS.54424.3.S1_3P_X_AT hepatocyte nuclear factor 4, alpha hs
U133_X3P:HS.54424.3.S1_3P_A_AT hepatocyte nuclear factor 4, alpha hs
U133_X3P:HS.54424.2.A1_3P_X_AT hepatocyte nuclear factor 4, alpha hs
U133_X3P:HS.54424.2.A1_3P_AT hepatocyte nuclear factor 4, alpha hs
U133_X3P:HS.54424.1.S1_3P_AT hepatocyte nuclear factor 4, alpha hs
HG-U133_PLUS_2:230914_AT hepatocyte nuclear factor 4, alpha hs
HG-U133B:230914_AT hepatocyte nuclear factor 4, alpha hs
HG-U95AV2:36721_S_AT hepatocyte nuclear factor 4, alpha hs
HG-U95AV2:36722_S_AT hepatocyte nuclear factor 4, alpha hs
HG-U95E:74797_AT hepatocyte nuclear factor 4, alpha hs
HG-U133_PLUS_2:214851_AT hepatocyte nuclear factor 4, alpha hs
HG-U133A_2:214851_AT hepatocyte nuclear factor 4, alpha hs
HG-U133A:214851_AT hepatocyte nuclear factor 4, alpha hs
HG-U95D:70611_AT Hepatocyte nuclear factor 4, alpha hs
MOUSE430A_2:1427000_AT hepatic nuclear factor 4, alpha mm
MOE430A:1427000_AT hepatic nuclear factor 4, alpha mm
MOUSE430_2:1427000_AT hepatic nuclear factor 4, alpha mm
MU11KSUBA:D29015_S_AT hepatic nuclear factor 4, alpha mm
MG-U74AV2:92713_AT hepatic nuclear factor 4, alpha mm
MG-U74BV2:107590_AT hepatic nuclear factor 4, alpha mm
MOE430A:1450447_AT hepatic nuclear factor 4, alpha mm
MOUSE430A_2:1450447_AT hepatic nuclear factor 4, alpha mm
MOUSE430_2:1450447_AT hepatic nuclear factor 4, alpha mm
MOE430A:1427001_S_AT hepatic nuclear factor 4, alpha mm
MOUSE430A_2:1427001_S_AT hepatic nuclear factor 4, alpha mm
MOUSE430_2:1427001_S_AT hepatic nuclear factor 4, alpha mm
MOE430A:1421983_S_AT hepatic nuclear factor 4, alpha mm
MOUSE430A_2:1421983_S_AT hepatic nuclear factor 4, alpha mm
MOUSE430_2:1421983_S_AT hepatic nuclear factor 4, alpha mm
MU19KSUBA:TC16125_AT Hepatic nuclear factor 4, alpha, mRNA (cDNA clone MGC:31368 IMAGE:4238842) mm
RG-U34A:D10554_S_AT hepatocyte nuclear factor 4, alpha rn
RG-U34A:X57133MRNA_AT hepatocyte nuclear factor 4, alpha rn
RG-U34A:X57133MRNA_G_AT hepatocyte nuclear factor 4, alpha rn
RAE230A:1369289_AT hepatocyte nuclear factor 4, alpha rn
RAT230_2:1369289_AT hepatocyte nuclear factor 4, alpha rn
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 CAB05815 Hypothetical protein T23H4.2 [Caenorhabditis elegans] ref|NP_492615.2| Nuclear Hormone Receptor family member (nhr-69) [Caenorhabditis elegans] gb|AAO39182.1| nuclear receptor NHR-69 [Caenorhabditis elegans] sp|P91829|NHR69_CAEEL Nuclear hormone receptor family member nhr-69 0.0
blast CAE60269 Hypothetical protein CBG03848 [Caenorhabditis briggsae] 0.0
blast T25211 hypothetical protein T23H4.2 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-48
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.9E-44
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.7E-48
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.9E-44
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000007946 1 99-121
Sequence
Target Sequence 
>C. ELEGANS:194132_AT
atatcgatcgatttgtctgacagttgaaaatacaatttgccttgcaaatgacacacttct
tccaaaagaacatgcaacacaagtgggagatatcaattgtgtcgtcggacgaattattga
tgaaattgtgaatccaatgaggaggttaaatatggatttaattgaatatgttgcactgaa
agctattctgtttttcaatccagtcgtcagagaaatcaacgatcagagtccggtggagaa
cgcccgatatgcttttttgaggtcattgcagagaaggtgtactgacaaggcacttgaaaa
tatggaagacgaatcaatggattgcagaagtggaaagcttttgttattacttccatcact
tcaggctattgctcaacaattggtagaagatgtccaacttgctcgtttgttcggtctcgt
gaatgtcgattcatccacaggtaatttttattttgaaaagcagaacaatgaaaggaatat
cttagttattggcaactttcaaaacctaaatcctgagcccggg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATATCGATCGATTTGTCTGACAGTT 93 21 585 Antisense
GAGATATCAATTGTGTCGTCGGACG 364 395 671 Antisense
TGTTTTTCAATCCAGTCGTCAGAGA 570 549 773 Antisense
AATCAACGATCAGAGTCCGGTGGAG 691 169 798 Antisense
GTCCGGTGGAGAACGCCCGATATGC 520 465 812 Antisense
ACGCCCGATATGCTTTTTTGAGGTC 471 89 824 Antisense
AGCTTTTGTTATTACTTCCATCACT 314 79 920 Antisense
TCCATCACTTCAGGCTATTGCTCAA 517 591 936 Antisense
TCGTTTGTTCGGTCTCGTGAATGTC 645 603 987 Antisense
GAATGTCGATTCATCCACAGGTAAT 395 331 1005 Antisense
TCAAAACCTAAATCCTGAGCCCGGG 615 629 1083 Antisense
Sequence Source Affymetrix Proprietary Database