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[188223_at]

Description Y73F8A.21 /REP_DB=WormBase Gene ID /WP=CE22993 /GEN=nhr-5 /TR=Q9NA51 /GB=CAB60549.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 72      4grp_total > 15      6grp_cgc > 75      6grp_cgc_sub > 03_04      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 229
1 2 3 4 range
A 381.9
(3)
A 		188.5
(-3)
P 		280.3
(-0.2)
M 		303.4
(0.6)
A 		193
B 337.7
(0.7)
P 		283.5
(-3)
A 		324.9
(-0.2)
A 		372.2
(3)
A 		89
C 417.2
(3)
M 		363.4
(-0.5)
A 		324.1
(-3)
A 		375.8
(0.3)
M 		93
avr 378.9
(3) 		278.5
(-3) 		309.8
(-1.1) 		350.5
(1.3) 		100

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 275
1 2 3 4 5 6 range
A 222
(2.8)
A 		140.9
(-1.4)
A 		207.2
(2)
A 		197.3
(1.5)
A 		226.4
(3)
M 		110.6
(-3)
A 		116
B 37
(-3)
A 		199.8
(0.6)
A 		184.8
(0.2)
A 		312
(3)
A 		129.5
(-1)
A 		201.1
(0.6)
A 		275
C 42.7
(-3)
A 		208
(2.4)
A 		226.2
(3)
A 		138
(0.1)
A 		164.5
(1)
A 		147.9
(0.4)
A 		184
avr 100.6
(-3) 		182.9
(1.3) 		206.1
(2.5) 		215.8
(3) 		173.5
(0.8) 		153.2
(-0.3) 		115
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 98
1 2 3 4 range
A 139.1
(3)
A 		40.9
(-3)
P 		73.3
(-1)
M 		44.4
(-2.8)
A 		98
B 107.7
(3)
P 		70
(-3)
A 		75.3
(-2.2)
A 		79.3
(-1.5)
A 		38
C 138.1
(3)
M 		104.5
(0.3)
A 		113
(1)
A 		63.4
(-3)
M 		75
avr 128.3
(3) 		71.8
(-2.1) 		87.2
(-0.7) 		62.4
(-3) 		66

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 70
1 2 3 4 5 6 range
A 40.9
(-1)
A 		50.1
(0.4)
A 		45.1
(-0.4)
A 		50.1
(0.4)
A 		68.3
(3)
M 		26.9
(-3)
A 		41
B 12.9
(-3)
A 		66.5
(1.6)
A 		44.9
(-0.2)
A 		82.6
(3)
A 		52.6
(0.4)
A 		75
(2.3)
A 		70
C 15.8
(-3)
A 		63.5
(3)
A 		57.6
(2.3)
A 		27.7
(-1.5)
A 		53.2
(1.7)
A 		49.5
(1.2)
A 		48
avr 23.2
(-3) 		60
(3) 		49.2
(1.2) 		53.5
(1.9) 		58
(2.7) 		50.5
(1.5) 		37
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188223_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10072
Sequence Type Exemplar sequence
Representative Public ID Y73F8A.21 NCBI
Target Description Y73F8A.21 /REP_DB=WormBase Gene ID /WP=CE22993 /GEN=nhr-5 /TR=Q9NA51 /GB=CAB60549.1 /SUBMIT=HINXTON /CHR=4 /FEA=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_070455(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070455 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-5) (nhr-5) mRNA, complete cds. 11/11 None
Y73F8A.21 ENSEMBL cdna:known chromosome:CEL140:IV:15400295:15407913:1 gene:Y73F8A.21 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000030824 8/11 Cross Hyb Matching Probes None
GENEFINDER00000030917 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:15400300-15407919(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-5
Ensembl Y73F8A.21
Entrez Gene 191717 Entrez gene
SwissProt Q9NA51 EMBL-EBI
WormBase CE22993 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 CAB60549 Hypothetical protein Y73F8A.21 [Caenorhabditis elegans] ref|NP_502856.1| Nuclear Hormone Receptor family member (nhr-5) [Caenorhabditis elegans] sp|Q9NA51|NHR5_CAEEL Nuclear hormone receptor family member nhr-5 0.0
blast CAE68087 Hypothetical protein CBG13722 [Caenorhabditis briggsae] 0.0
blast AAV34794 Nuclear hormone receptor family protein 31, isoform c [Caenorhabditis elegans] ref|NP_001021330.1| Nuclear Hormone Receptor family member (nhr-31) [Caenorhabditis elegans] 1.0E-81
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.1E-18
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.5E-25
Sequence
Target Sequence 
>C. ELEGANS:188223_AT
cagcctccaaacaatttctacattactgaaatgttggatgatttgaggaacaatcacgcc
gagaatcatttgataagtctcaactttgacgcttcaaacgtttcgaatgcaatcgcttcg
agacccagttttgaggatttgggtactgtaccaagtggttcaacagtaacacgacgaatt
gggagtaatattcaaggaccatcccacctccctcaatgtggttctacagtaacccaaaga
cctacagtaccctcctccacaacatcctccacattctacaatttccctccaccacctggt
tatccaccattaaatgctggatacacaccgaatgtcaactatccgaatttgtatcaacaa
ccacagtatttccagaattttcagcaaaataattacccatctcaagtcatggaacagcaa
aattatggaaatgttgaaagtaccagttacccatttccacgaaatgatgaaaatgtgaaa
cagagcatacacttttctcgccacttgaaccttacaaaaacagattttgaaattcgagag
gtccacgatagcccg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAGCCTCCAAACAATTTCTACATTA 254 203 1495 Antisense
GGAACAATCACGCCGAGAATCATTT 213 529 1541 Antisense
ATCGCTTCGAGACCCAGTTTTGAGG 47 33 1606 Antisense
TAATATTCAAGGACCATCCCACCTC 173 635 1680 Antisense
ACCTCCCTCAATGTGGTTCTACAGT 22 89 1700 Antisense
CACCACCTGGTTATCCACCATTAAA 665 201 1784 Antisense
CACACCGAATGTCAACTATCCGAAT 511 195 1818 Antisense
TGAAAGTACCAGTTACCCATTTCCA 322 573 1929 Antisense
AACAGAGCATACACTTTTCTCGCCA 73 135 1973 Antisense
TTCTCGCCACTTGAACCTTACAAAA 446 693 1989 Antisense
AATTCGAGAGGTCCACGATAGCCCG 86 177 2025 Antisense
Sequence Source Affymetrix Proprietary Database