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[190875_at]

Description R11E3.5 /REP_DB=WormBase Gene ID /WP=CE19547 /TR=Q9TYX5 /GB=AAK39267.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_highest_10_10 > 43      6grp_high1_10_10 > 33      4grp_highest_8_8 > 46      4grp_high_8_8 > 11      6grp_highest_nonorm > 80      6grp_total > 12      4grp_total > 21      6grp_highest_sub > 02      6grp_cgc > 52      6grp_high1_sub > 02      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 265
1 2 3 4 range
A 297
(0.1)
P 		222.6
(-1.8)
P 		175.7
(-3)
P 		413.3
(3)
P 		238
B 310.6
(2.3)
P 		167.2
(-2.4)
P 		148.6
(-3)
P 		330.8
(3)
P 		182
C 347.1
(2.3)
P 		221
(-1.2)
P 		155.2
(-3)
P 		372.2
(3)
P 		217
avr 318.2
(1.5) 		203.6
(-1.8) 		159.8
(-3) 		372.1
(3) 		212

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 208
1 2 3 4 5 6 range
A 215.1
(0.1)
P 		183.5
(-2)
P 		259.1
(3)
P 		245.9
(2.1)
P 		217.5
(0.3)
P 		167.7
(-3)
P 		91
B 234.6
(1.8)
P 		248.1
(3)
P 		199.9
(-1.4)
P 		210.3
(-0.5)
P 		231
(1.4)
P 		182.7
(-3)
P 		65
C 233.4
(-1.5)
P 		375.5
(3)
P 		211.3
(-2.2)
P 		222.3
(-1.8)
P 		204.1
(-2.4)
P 		184.8
(-3)
P 		191
avr 227.7
(0.3) 		269
(3) 		223.4
(-0) 		226.2
(0.2) 		217.5
(-0.4) 		178.4
(-3) 		91
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 81
1 2 3 4 range
A 108.1
(3)
P 		48.3
(-2.8)
P 		45.9
(-3)
P 		60.5
(-1.6)
P 		62
B 99.1
(3)
P 		41.3
(-2.4)
P 		34.4
(-3)
P 		70.5
(0.3)
P 		65
C 114.9
(3)
P 		63.5
(-2.1)
P 		54.1
(-3)
P 		62.8
(-2.1)
P 		61
avr 107.4
(3) 		51
(-2.4) 		44.8
(-3) 		64.6
(-1.1) 		63

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 75
1 2 3 4 5 6 range
A 39.7
(-3)
P 		65.3
(2.9)
P 		56.4
(0.9)
P 		62.4
(2.3)
P 		65.6
(3)
P 		40.8
(-2.7)
P 		26
B 81.6
(1.4)
P 		82.6
(1.5)
P 		48.5
(-3)
P 		55.7
(-2)
P 		93.9
(3)
P 		68.1
(-0.4)
P 		45
C 86.5
(0.6)
P 		114.6
(3)
P 		53.8
(-2.2)
P 		44.7
(-3)
P 		66
(-1.2)
P 		61.9
(-1.5)
P 		70
avr 69.3
(-0.2) 		87.5
(3) 		52.9
(-3) 		54.3
(-2.8) 		75.2
(0.9) 		56.9
(-2.3) 		35
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190875_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.10996
Sequence Type Exemplar sequence
Representative Public ID R11E3.5 NCBI
Target Description R11E3.5 /REP_DB=WormBase Gene ID /WP=CE19547 /TR=Q9TYX5 /GB=AAK39267.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
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_171326(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171326 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-104) (nhr-104) mRNA, complete cds. 11/11 None
R11E3.5a ENSEMBL cdna:known chromosome:CEL140:IV:4784224:4788427:-1 gene:R11E3.5 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001028171 5/11 Cross Hyb Matching Probes None
SNAP00000009826 5/11 Cross Hyb Matching Probes None
GENEFINDER00000009847 5/11 Cross Hyb Matching Probes None
R11E3.5c 5/11 Cross Hyb Matching Probes None
R11E3.5b 5/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
177248 3 1 NM_171326 190875_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:4784231-4788433(-) 100.0 100.0
Public Domain and Genome References
Ensembl R11E3.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAM97936 Nuclear hormone receptor family protein 104, isoform a [Caenorhabditis elegans] ref|NP_741384.1| Nuclear Hormone Receptor family member (nhr-104) [Caenorhabditis elegans] 0.0
blast T33747 hypothetical protein R11E3.5 - Caenorhabditis elegans 0.0
blast AAU05545 Nuclear hormone receptor family protein 104, isoform c [Caenorhabditis elegans] ref|NP_001023342.1| Nuclear Hormone Receptor family member (nhr-104) [Caenorhabditis elegans] gb|AAO39192.1| nuclear receptor NHR-104 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.8E-25
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.1E-24
Sequence
Target Sequence 
>C. ELEGANS:190875_AT
aatgttctcgaaccaatgctcagagaaaacgtgacacaattcgagtttcttgctctagca
gcattattgttgtttgataccggtctcgaagatcaatcagatgattgcatggatctttgc
cggaatgttcgaacacttattcaacgggaaatgattcaatactattcaaataaacattta
gacgagtatccattgagaatggcagatgtcatttcactgattcccagggtacaaaaagct
gctcaaaaaatgcagagcgatatggaaattggtcacttgtttaacacttacgctgctgaa
aaatcattttttgagaattgtatgggaaaagcacaacaaattacgcatcaaactctccca
caactccctccactcacacaacattccgaaataagatcaataaataatccgaaattggct
ataactctcatttccggttgtcacatgtttttctcccgaattaaacgttccaatagattt
gtcaacctcccagtgttttcaaattttagttttttcttccaagaatttccatatttaatt
tgctcatttttcttttatttatttgttggttttcctctttttatatccgatcca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATGTTCTCGAACCAATGCTCAGAG 87 163 772 Antisense
ATTGTTGTTTGATACCGGTCTCGAA 395 1 837 Antisense
TCTTTGCCGGAATGTTCGAACACTT 452 597 885 Antisense
GTCATTTCACTGATTCCCAGGGTAC 618 467 979 Antisense
GTTTAACACTTACGCTGCTGAAAAA 20 447 1050 Antisense
AACAAATTACGCATCAAACTCTCCC 302 135 1106 Antisense
ATTGGCTATAACTCTCATTTCCGGT 67 3 1185 Antisense
TCTCATTTCCGGTTGTCACATGTTT 381 613 1197 Antisense
GTCACATGTTTTTCTCCCGAATTAA 258 465 1211 Antisense
TTGTCAACCTCCCAGTGTTTTCAAA 503 703 1250 Antisense
TTTTCCTCTTTTTATATCCGATCCA 514 677 1341 Antisense
Sequence Source Affymetrix Proprietary Database