[Home] | [Total List]

[194123_s_at] Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)

Description F32B6.1 /REP_DB=WormBase Gene ID /WP=CE24934 /GEN=nhr-4 /TR=SW:O45436 /GB=CAB03044.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=Ligand-binding domain of nuclear hormone receptors, Zinc finger, C4 type (two domains)
Cluster 6grp_highest_10_10 > 74      6grp_high1_10_10 > 56      4grp_highest_8_8 > 38      4grp_high_8_8 > 03      6grp_highest_nonorm > 86      6grp_total > 47      4grp_total > 13      6grp_highest_sub > Cu      6grp_cgc > 27      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2024
1 2 3 4 range
A 1612.5
(0.8)
P 		446.4
(-3)
P 		505.8
(-2.8)
P 		2290.1
(3)
P 		1844
B 1478.9
(0.1)
P 		557.9
(-2.6)
P 		438.4
(-3)
P 		2462.4
(3)
P 		2024
C 1417.1
(-0.1)
P 		497.5
(-3)
P 		512.9
(-3)
P 		2401.3
(3)
P 		1904
avr 1502.8
(0.2) 		500.6
(-3) 		485.7
(-3) 		2384.6
(3) 		1899

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1044
1 2 3 4 5 6 range
A 1441.3
(2.4)
P 		955.1
(-0.7)
P 		978.3
(-0.6)
P 		786.6
(-1.8)
P 		598.6
(-3)
P 		1537.5
(3)
P 		939
B 1341
(1.7)
P 		1173.2
(0.5)
P 		1128.2
(0.2)
P 		683.8
(-3)
P 		715.5
(-2.8)
P 		1526.7
(3)
P 		843
C 929
(-0.6)
P 		1050.9
(0.1)
P 		967
(-0.3)
P 		932.5
(-0.5)
P 		502.8
(-3)
P 		1547
(3)
P 		1044
avr 1237.1
(1.1) 		1059.7
(-0.1) 		1024.5
(-0.3) 		801
(-1.7) 		605.6
(-3) 		1537.1
(3) 		932
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 490
1 2 3 4 range
A 587.1
(3)
P 		96.9
(-3)
P 		132.2
(-2.6)
P 		335.2
(-0.1)
P 		490
B 471.6
(2.2)
P 		137.8
(-2.5)
P 		101.6
(-3)
P 		524.7
(3)
P 		423
C 469.1
(3)
P 		143
(-3)
P 		178.8
(-2.3)
P 		404.9
(1.8)
P 		326
avr 509.3
(3) 		125.9
(-3) 		137.5
(-2.8) 		421.6
(1.6) 		383

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 407
1 2 3 4 5 6 range
A 265.7
(-0.4)
P 		339.7
(1.9)
P 		213
(-2)
P 		199.5
(-2.4)
P 		180.6
(-3)
P 		374.3
(3)
P 		194
B 466.6
(1.4)
P 		390.5
(0.2)
P 		274
(-1.6)
P 		181.1
(-3)
P 		290.7
(-1.3)
P 		569.3
(3)
P 		388
C 344.3
(0.1)
P 		320.7
(-0.3)
P 		246.1
(-1.6)
P 		187.5
(-2.6)
P 		162.7
(-3)
P 		517.9
(3)
P 		355
avr 358.9
(0.4) 		350.3
(0.2) 		244.4
(-1.9) 		189.4
(-3) 		211.3
(-2.6) 		487.2
(3) 		298
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194123_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8846
Sequence Type Exemplar sequence
Representative Public ID F32B6.1 NCBI
Target Description F32B6.1 /REP_DB=WormBase Gene ID /WP=CE24934 /GEN=nhr-4 /TR=SW:O45436 /GB=CAB03044.2 /SUBMIT=HINXTON /CHR=4 /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_069374(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069374 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-4) (nhr-4) mRNA, complete cds. 11/11 None
SNAP00000041527 ENSEMBL cdna:SNAP chromosome:CEL140:IV:9879306:9881923:1 11/11 None
GENEFINDER00000041542 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:9879306:9881923:1 11/11 None
F32B6.1.2 ENSEMBL cdna:known chromosome:CEL140:IV:9879300:9882124:1 gene:F32B6.1 11/11 None
F32B6.1.1 ENSEMBL cdna:known chromosome:CEL140:IV:9879301:9882126:1 gene:F32B6.1 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
chrIV:9879311-9881929(+) 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-4
Ensembl F32B6.1
Entrez Gene 177839 Entrez gene
SwissProt O45436 EMBL-EBI
WormBase CE24934 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 CAB03044 Hypothetical protein F32B6.1 [Caenorhabditis elegans] ref|NP_501775.1| Nuclear Hormone Receptor family member (nhr-4) [Caenorhabditis elegans] gb|AAD03681.1| nuclear receptor NHR-4 [Caenorhabditis elegans] sp|O45436|NHR4_CAEEL Nuclear hormone receptor family member nhr-4 0.0
blast T21645 hypothetical protein F32B6.1 - Caenorhabditis elegans 0.0
blast CAE59975 Hypothetical protein CBG03466 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.0E-40
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.7E-42
Sequence
Target Sequence 
>C. ELEGANS:194123_S_AT
ggcgtcgtcatttcacttattattctgattggtgtcatgcaatggatgaattcaaggcat
tgtctcctgaagatcagattgttttggcaaagaaaaagattatacttcatggatggcttg
ttcatgcttactactcatacaagagtggttgcaatggaatttgttttgcaaatggagccg
cccatcttcctgaaggaggtcatccaagtatcacggaattctacaaagaatgcatgcctc
gttatctgaactatgtcatttatccaatgcataatttccaaatggatgatgctgaaatgg
tacttatcaaatgtatcatgttcttttcgagtgaatccggactaagtgctgctggacggc
aaatcgtttcggcggctcgtgaaaaatatttatcagctttatataattatgggcgtgcaa
ataaatgtaccacatcagctcaggca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGCGTCGTCATTTCACTTATTATTC 559 541 869 Antisense
GAATTCAAGGCATTGTCTCCTGAAG 568 323 916 Antisense
GGATGGCTTGTTCATGCTTACTACT 370 515 979 Antisense
CCGCCCATCTTCCTGAAGGAGGTCA 349 263 1046 Antisense
GGAGGTCATCCAAGTATCACGGAAT 133 517 1063 Antisense
AATGCATGCCTCGTTATCTGAACTA 426 165 1097 Antisense
ATGTTCTTTTCGAGTGAATCCGGAC 575 45 1186 Antisense
GAATCCGGACTAAGTGCTGCTGGAC 528 329 1201 Antisense
GCTGCTGGACGGCAAATCGTTTCGG 322 297 1216 Antisense
ATCGTTTCGGCGGCTCGTGAAAAAT 451 35 1231 Antisense
TAAATGTACCACATCAGCTCAGGCA 180 641 1290 Antisense
Sequence Source Affymetrix Proprietary Database