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[175270_at]

Description AU115410_rc /REP_DB=TREMBL Accession /GB=AU115410 /CHR=5 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk732c8 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 25      6grp_high1_10_10 > 51      4grp_highest_8_8 > 51      4grp_high_8_8 > 32      6grp_highest_nonorm > 62      6grp_total > 52      4grp_total > 47      6grp_highest_sub > 03      6grp_cgc > 83      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 670
1 2 3 4 range
A 716.4
(3)
P 		160
(-3)
P 		173.7
(-2.9)
P 		202.1
(-2.5)
P 		556
B 678.8
(3)
P 		171.5
(-2.8)
P 		158.4
(-3)
P 		208.3
(-2.4)
P 		520
C 828.3
(3)
P 		176.9
(-3)
P 		181.7
(-3)
P 		199.1
(-2.8)
P 		651
avr 741.2
(3) 		169.5
(-3) 		171.3
(-3) 		203.2
(-2.6) 		572

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 724
1 2 3 4 5 6 range
A 265.9
(-1.9)
P 		375.6
(-0.9)
P 		802.1
(3)
P 		466.2
(-0.1)
P 		306
(-1.6)
P 		151.5
(-3)
P 		651
B 414.7
(-1.1)
P 		568.9
(0.3)
P 		875.5
(3)
P 		493.1
(-0.4)
P 		429.1
(-1)
P 		204.5
(-3)
P 		671
C 341.5
(-1.1)
P 		478.2
(0.8)
P 		389.4
(-0.4)
P 		626.9
(3)
P 		307.6
(-1.6)
P 		212.8
(-3)
P 		414
avr 340.7
(-1.2) 		474.2
(0.4) 		689
(3) 		528.7
(1.1) 		347.6
(-1.1) 		189.6
(-3) 		499
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 245
1 2 3 4 range
A 260.8
(3)
P 		34.7
(-2.9)
P 		45.4
(-2.6)
P 		29.6
(-3)
P 		231
B 216.5
(3)
P 		42.3
(-2.8)
P 		36.7
(-3)
P 		44.4
(-2.7)
P 		180
C 274.2
(3)
P 		50.9
(-2.6)
P 		63.3
(-2.3)
P 		33.6
(-3)
P 		241
avr 250.5
(3) 		42.6
(-2.8) 		48.5
(-2.6) 		35.9
(-3) 		215

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 176
1 2 3 4 5 6 range
A 49
(-2.5)
P 		133.6
(1.2)
P 		174.7
(3)
P 		118.2
(0.5)
P 		92.3
(-0.6)
P 		36.9
(-3)
P 		138
B 144.3
(-0)
P 		189.3
(2)
P 		212.6
(3)
P 		130.6
(-0.6)
P 		174.3
(1.3)
P 		76.3
(-3)
P 		136
C 126.6
(1.4)
P 		145.9
(3)
P 		99.1
(-0.8)
P 		126.1
(1.4)
P 		99.5
(-0.7)
P 		71.2
(-3)
P 		75
avr 106.6
(-0.3) 		156.3
(2.7) 		162.1
(3) 		125
(0.8) 		122
(0.6) 		61.5
(-3) 		101
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175270_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21810
Sequence Type Exemplar sequence
Representative Public ID AU115410 NCBI
Target Description AU115410_rc /REP_DB=TREMBL Accession /GB=AU115410 /CHR=5 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk732c8 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_073534(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073534 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-101) (nhr-101) mRNA, complete cds. 11/11 None
SNAP00000002549 ENSEMBL cdna:SNAP chromosome:CEL140:V:11573065:11574911:1 11/11 None
GENEFINDER00000002555 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:11573065:11575250:1 11/11 None
H12C20.6 ENSEMBL cdna:known chromosome:CEL140:V:11573036:11574950:1 gene:H12C20.6 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
chrV:11574493-11574872(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-101
Ensembl H12C20.6
Entrez Gene 179588 Entrez gene
SwissProt Q95ZS3 EMBL-EBI
WormBase CE31964 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 CAC42310 Hypothetical protein H12C20.6 [Caenorhabditis elegans] ref|NP_505935.2| Nuclear Hormone Receptor family member (nhr-101) [Caenorhabditis elegans] 0.0
blast AAO39189 nuclear receptor NHR-101 [Caenorhabditis elegans] 0.0
blast CAE75339 Hypothetical protein CBG23319 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 7.0E-35
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 5.3E-45
Sequence
Target Sequence 
>C. ELEGANS:175270_AT
gaatttgctgcgttcaaagcaatcacgtttttgaatccagacgctgatgtttctctccaa
gcaaagttggcaataaatgaggaacgaatatctgtaactaaacaactttatgactatatg
gtgagaaacgatggaattgaaaaagctataaaaagatttagccgtctaattctcattgga
acttcgatgtcgaaaatggcttgtgaatcgaaagaagctgtttggatcgctgatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATTTGCTGCGTTCAAAGCAATCA 542 323 26 Antisense
GCTGCGTTCAAAGCAATCACGTTTT 356 297 32 Antisense
AGCAATCACGTTTTTGAATCCAGAC 452 75 43 Antisense
CGCTGATGTTTCTCTCCAAGCAAAG 212 255 67 Antisense
GAGGAACGAATATCTGTAACTAAAC 371 313 104 Antisense
AACAACTTTATGACTATATGGTGAG 515 135 126 Antisense
AAGATTTAGCCGTCTAATTCTCATT 610 155 178 Antisense
GCCGTCTAATTCTCATTGGAACTTC 511 283 186 Antisense
TTCTCATTGGAACTTCGATGTCGAA 644 691 195 Antisense
CTTCGATGTCGAAAATGGCTTGTGA 616 219 207 Antisense
AAAGAAGCTGTTTGGATCGCTGATT 437 123 236 Antisense
Sequence Source Affymetrix Proprietary Database