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[175757_s_at] nuclear hormone receptor

Description g5881164 /REP_DB=GenBank Identifier /GB=AF176087.1 /PROTEIN_GB=AAD55066.1 /CHR=X /FEA=Mapped Transcript /DEF=nuclear hormone receptor FAX-1
Cluster 4grp_high_8_8 > 10      6grp_total > 14      4grp_total > 15      6grp_cgc > 30      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 73
1 2 3 4 range
A 81.9
(1.3)
A 		35.2
(-3)
A 		71.2
(0.3)
A 		100.6
(3)
A 		65
B 89.1
(3)
P 		46.9
(-1.1)
A 		27.5
(-3)
A 		60.9
(0.3)
M 		62
C 62.8
(0)
P 		45.7
(-2.3)
P 		40.6
(-3)
P 		84.8
(3)
P 		44
avr 77.9
(2.4) 		42.6
(-3) 		46.4
(-2.4) 		82.1
(3) 		40

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 93
1 2 3 4 5 6 range
A 91.4
(2.8)
P 		94.1
(3)
P 		35.8
(-1.8)
A 		48.3
(-0.7)
A 		64.4
(0.6)
A 		20.8
(-3)
A 		73
B 92.5
(2.7)
P 		75.3
(0.7)
P 		95.2
(3)
P 		42.3
(-3)
A 		52.9
(-1.8)
P 		60.6
(-0.9)
A 		53
C 88.7
(1.2)
P 		93.7
(1.6)
M 		55.9
(-1.2)
A 		113.5
(3)
P 		30.8
(-3)
A 		47.9
(-1.8)
A 		83
avr 90.9
(3) 		87.7
(2.6) 		62.3
(-0.6) 		68
(0.1) 		49.4
(-2.2) 		43.1
(-3) 		48
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 23
1 2 3 4 range
A 29.8
(3)
A 		7.6
(-3)
A 		18.6
(-0)
A 		14.7
(-1.1)
A 		22
B 28.4
(3)
P 		11.6
(-1.6)
A 		6.4
(-3)
A 		13
(-1.2)
M 		22
C 20.8
(3)
P 		13.1
(-3)
P 		14.1
(-2.2)
P 		14.3
(-2.1)
P 		8
avr 26.3
(3) 		10.8
(-3) 		13
(-2.1) 		14
(-1.8) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 28
1 2 3 4 5 6 range
A 16.8
(-0.5)
P 		33.5
(3)
P 		7.8
(-2.4)
A 		12.3
(-1.5)
A 		19.4
(0)
A 		5.1
(-3)
A 		28
B 32.2
(3)
P 		25.1
(1)
P 		23.1
(0.4)
P 		11.2
(-3)
A 		21.5
(-0.1)
P 		22.6
(0.3)
A 		21
C 32.9
(3)
P 		28.6
(1.9)
M 		14.2
(-1.9)
A 		22.8
(0.4)
P 		10
(-3)
A 		16
(-1.4)
A 		23
avr 27.3
(2.3) 		29.1
(3) 		15
(-2.8) 		15.4
(-2.7) 		17
(-2) 		14.6
(-3) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 175757_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20039
Sequence Type Exemplar sequence
Representative Public ID 5881164 NCBI
Target Description g5881164 /REP_DB=GenBank Identifier /GB=AF176087.1 /PROTEIN_GB=AAD55066.1 /CHR=X /FEA=Mapped Transcript /DEF=nuclear hormone receptor FAX-1
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_076146(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076146 NCBI Caenorhabditis elegans defective FAsciculation of aXons family member (fax-1) (fax-1) mRNA, complete cds. 11/11 None
GENEFINDER00000022815 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:3188686:3199280:-1 11/11 None
SNAP00000022813 ENSEMBL cdna:SNAP chromosome:CEL140:X:3197358:3198753:-1 11/11 None
F56E3.4 ENSEMBL cdna:known chromosome:CEL140:X:3197274:3199312:-1 gene:F56E3.4 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:3197274-3199313(-) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol fax-1
Ensembl F56E3.4
Entrez Gene 180609 Entrez gene
SwissProt P90892 EMBL-EBI
WormBase CE28464 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
4879 ligand-dependent nuclear receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK39238 Defective fasciculation of axons protein 1 [Caenorhabditis elegans] ref|NP_508547.1| defective FAsciculation of aXons family member (fax-1) [Caenorhabditis elegans] gb|AAD55066.1| nuclear hormone receptor FAX-1 [Caenorhabditis elegans] 0.0
blast CAE68391 Hypothetical protein CBG14155 [Caenorhabditis briggsae] 0.0
blast CAE68391 Hypothetical protein CBG14155 [Caenorhabditis briggsae] 1.0E-171
blast T29238 hypothetical protein F56E3.4 - Caenorhabditis elegans 1.0E-163
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 0.015
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 9.2E-43
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 0.015
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 9.2E-43
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 0.015
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 9.2E-43
Sequence
Target Sequence 
>C. ELEGANS:175757_S_AT
gaaagtgtgctccagtgggctcaacagtttcggctttttacagtgctcacaaattctgag
aagagacaaataatcctaactcaatggccgcgtctcctgtgtatatccctctgtgagcag
gcagaagatgtctctttcgacgaccacctgacgagcctcatgctcaagttccgacgttta
gacgtttcgccggctgaattcaattgcttgaaagcgatcaccatcttcatgaaacgtgag
ttgagcctgtggagagcgggatgggacaacagagcaagcatcattaccgtataccccgct
ggcgaaagaggagcacgccttgttgctgccgcgcttctgttggcagagcacagcgtgatg
ggtttcggcaattgtgttatccctctcgcgctggtcttttctaccaaaagcagatatgtg
atacaacggcatgccattaactctttacccgcctgtgtccccggaggcacgtctgcgcat
cctgtgctcagatgctccatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAAGTGTGCTCCAGTGGGCTCAAC 230 361 777 Antisense
GGCTCAACAGTTTCGGCTTTTTACA 384 539 794 Antisense
TAATCCTAACTCAATGGCCGCGTCT 205 635 847 Antisense
GTGTATATCCCTCTGTGAGCAGGCA 108 485 875 Antisense
CTCATGCTCAAGTTCCGACGTTTAG 547 229 933 Antisense
GTTTCGCCGGCTGAATTCAATTGCT 379 449 960 Antisense
AGCAAGCATCATTACCGTATACCCC 82 77 1049 Antisense
GAGCACAGCGTGATGGGTTTCGGCA 616 389 1122 Antisense
GGTTTCGGCAATTGTGTTATCCCTC 616 505 1137 Antisense
AACGGCATGCCATTAACTCTTTACC 284 143 1201 Antisense
GCATCCTGTGCTCAGATGCTCCATG 579 309 1253 Antisense
Sequence Source GenBank