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[176072_at]

Description Y41D4B.T /REP_DB=WormBase Gene ID /WP=CE26096 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
Cluster 6grp_highest_10_10 > 0      6grp_high1_10_10 > 0      4grp_highest_8_8 > 31      4grp_high_8_8 > 05      6grp_highest_nonorm > 81      6grp_total > 04      4grp_total > 03      6grp_cgc > 51      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 663
1 2 3 4 range
A 347.1
(-2.1)
P 		287.4
(-2.7)
P 		261.7
(-3)
P 		825
(3)
P 		563
B 315.9
(-2.6)
P 		283.8
(-2.8)
P 		267.3
(-3)
P 		924.7
(3)
P 		657
C 411.6
(-1)
P 		264.9
(-3)
P 		282.2
(-2.8)
P 		702.8
(3)
P 		438
avr 358.2
(-2) 		278.7
(-2.9) 		270.4
(-3) 		817.5
(3) 		547

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 176
1 2 3 4 5 6 range
A 365.8
(3)
P 		306.3
(0.4)
P 		273.3
(-1.1)
P 		300.1
(0.1)
P 		260.5
(-1.6)
P 		229.7
(-3)
P 		136
B 282.5
(0.4)
P 		269.1
(-0.3)
P 		217.2
(-3)
P 		332.7
(3)
P 		314.5
(2.1)
P 		246.4
(-1.5)
P 		116
C 326.7
(1.1)
P 		326.2
(1.1)
P 		381.6
(3)
P 		300.2
(0.2)
P 		330.9
(1.3)
P 		206
(-3)
P 		176
avr 325
(3) 		300.5
(1.5) 		290.7
(0.9) 		311
(2.1) 		302
(1.6) 		227.4
(-3) 		98
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 135
1 2 3 4 range
A 126.4
(3)
P 		62.4
(-3)
P 		68.4
(-2.4)
P 		120.8
(2.5)
P 		64
B 100.7
(-1.3)
P 		70.1
(-2.6)
P 		61.9
(-3)
P 		197
(3)
P 		135
C 136.3
(3)
P 		76.2
(-3)
P 		98.3
(-0.8)
P 		118.5
(1.2)
P 		60
avr 121.1
(1.1) 		69.6
(-3) 		76.2
(-2.5) 		145.4
(3) 		76

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 75
1 2 3 4 5 6 range
A 67.4
(-1.7)
P 		108.9
(3)
P 		59.5
(-2.6)
P 		76.1
(-0.7)
P 		78.6
(-0.4)
P 		55.9
(-3)
P 		53
B 98.3
(0.6)
P 		89.6
(-0.1)
P 		52.7
(-3)
P 		88.1
(-0.2)
P 		127.8
(3)
P 		91.9
(0.1)
P 		75
C 121.1
(3)
P 		99.5
(0.9)
P 		97.1
(0.6)
P 		60.4
(-3)
P 		107.1
(1.6)
P 		69
(-2.1)
P 		61
avr 95.6
(1.5) 		99.3
(2.1) 		69.8
(-3) 		74.9
(-2.1) 		104.5
(3) 		72.3
(-2.6) 		35
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 176072_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19179
Sequence Type Exemplar sequence
Representative Public ID Y41D4B.T NCBI
Target Description Y41D4B.T /REP_DB=WormBase Gene ID /WP=CE26096 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS)
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_067708(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067708 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-122) (nhr-122) mRNA, complete cds. 11/11 None
GENEFINDER00000005532 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:1613915:1616660:1 9/11 None
Y41D4B.9 ENSEMBL cdna:known chromosome:CEL140:IV:1613895:1616748:1 gene:Y41D4B.9 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000005515 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:1613920-1616754(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-122
Ensembl Y41D4B.9
Entrez Gene 189821 Entrez gene
SwissProt Q95Y09 EMBL-EBI
WormBase CE26096 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
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK68483 Nuclear hormone receptor family protein 122 [Caenorhabditis elegans] ref|NP_500109.1| Nuclear Hormone Receptor family member (nhr-122) [Caenorhabditis elegans] 0.0
blast AAK68483 Nuclear hormone receptor family protein 122 [Caenorhabditis elegans] ref|NP_500109.1| Nuclear Hormone Receptor family member (nhr-122) [Caenorhabditis elegans] 1.0E-149
blast AAL32242 Nuclear hormone receptor family protein 87 [Caenorhabditis elegans] ref|NP_500112.2| Nuclear Hormone Receptor family member (nhr-87) [Caenorhabditis elegans] 1.0E-139
blast AAG15178 nuclear receptor NHR-87 [Caenorhabditis elegans] 1.0E-139
blast CAE67968 Hypothetical protein CBG13574 [Caenorhabditis briggsae] 1.0E-97
blast AAL32242 Nuclear hormone receptor family protein 87 [Caenorhabditis elegans] ref|NP_500112.2| Nuclear Hormone Receptor family member (nhr-87) [Caenorhabditis elegans] 3.0E-87
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.6E-28
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.4E-22
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.2E-11
Sequence
Target Sequence 
>C. ELEGANS:176072_AT
gactgggctatgaactcattcccacaactcgcagacttcccgaatgatcaacggaagatc
cttttgaagcacttttatcttcaatttttcatactggaaagtggattcatggcctgcaga
aatggtcgaaatgatgtgtggtttcttccgaacggagattatattgattgtcgagatctc
gcaagtttctaccgagatccgacgcgtccagaatcaagctcacagtcgataagtccagag
catgcagcattaatgatgaagggaacatgtacgggatgcaggaggatggtgactaatacc
atgctgaaggataatatcgaccaatgcgaattcttggcactatcagcgttgattcttttt
cagacaggcctagaaggacaatcggaatcctgtatggagacttgcaagaaaattcgaagc
acagtgcaacgggagcttctacagtactacgcggggaaaaggacccaggaatattcgatt
cgaatgggaaatgtgctctcgttgcttccaagtgtgctgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GACTGGGCTATGAACTCATTCCCAC 34 377 517 Antisense
ACAACTCGCAGACTTCCCGAATGAT 351 113 540 Antisense
GAAAGTGGATTCATGGCCTGCAGAA 487 361 613 Antisense
TGATGTGTGGTTTCTTCCGAACGGA 160 563 648 Antisense
TGTCGAGATCTCGCAAGTTTCTACC 50 557 685 Antisense
TCCGACGCGTCCAGAATCAAGCTCA 114 595 714 Antisense
TCAAGCTCACAGTCGATAAGTCCAG 462 631 730 Antisense
GCGAATTCTTGGCACTATCAGCGTT 477 287 842 Antisense
ATCAGCGTTGATTCTTTTTCAGACA 328 29 858 Antisense
GAATGGGAAATGTGCTCTCGTTGCT 243 333 998 Antisense
TCTCGTTGCTTCCAAGTGTGCTGAG 255 611 1013 Antisense
Sequence Source Affymetrix Proprietary Database