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[193567_at]

Description Y17D7A.3 /REP_DB=WormBase Gene ID /WP=CE16588 /GEN=nhr-65 /TR=O45907 /GB=CAA16292.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 4grp_high_8_8 > 06      6grp_total > 57      4grp_total > 02      6grp_cgc > 37      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 258
1 2 3 4 range
A 213.7
(-1.4)
P 		153
(-3)
A 		168.9
(-2.6)
A 		380.6
(3)
P 		228
B 149.6
(-3)
P 		175.8
(-2.2)
P 		176.4
(-2.2)
P 		356.6
(3)
P 		207
C 166.5
(-3)
P 		175.3
(-2.8)
A 		187.7
(-2.5)
P 		407.9
(3)
P 		241
avr 176.6
(-2.8) 		168
(-3) 		177.7
(-2.7) 		381.7
(3) 		214

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 169
1 2 3 4 5 6 range
A 164.7
(-0.8)
P 		128.5
(-2.2)
A 		168.9
(-0.6)
A 		153.3
(-1.2)
A 		107.8
(-3)
A 		263.4
(3)
P 		156
B 207.7
(1.4)
P 		227.5
(2.4)
P 		120.1
(-3)
A 		163
(-0.9)
A 		160.1
(-1)
A 		240.1
(3)
P 		120
C 124.8
(-2.5)
P 		197.4
(0.1)
M 		193.3
(-0)
A 		111
(-3)
A 		158.9
(-1.3)
A 		277
(3)
P 		166
avr 165.7
(-1.8) 		184.5
(-0.9) 		160.8
(-2.1) 		142.4
(-3) 		142.3
(-3) 		260.2
(3) 		118
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 45
1 2 3 4 range
A 77.8
(3)
P 		33.2
(-3)
A 		44.2
(-1.5)
A 		55.7
(0)
P 		45
B 47.7
(-1.8)
P 		43.4
(-2.6)
P 		40.9
(-3)
P 		76
(3)
P 		35
C 55.1
(-1.5)
P 		50.4
(-3)
A 		65.4
(1.9)
P 		68.8
(3)
P 		18
avr 60.2
(1.4) 		42.3
(-3) 		50.2
(-1.1) 		66.8
(3) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 70
1 2 3 4 5 6 range
A 30.4
(-3)
P 		45.7
(-0.3)
A 		36.8
(-1.9)
A 		38.9
(-1.5)
A 		32.5
(-2.6)
A 		64.1
(3)
P 		34
B 72.3
(1.3)
P 		75.7
(1.6)
P 		29.2
(-3)
A 		43.2
(-1.6)
A 		65
(0.6)
A 		89.5
(3)
P 		60
C 46.3
(-1)
P 		60.2
(0.2)
M 		49.2
(-0.7)
A 		22.3
(-3)
A 		51.4
(-0.5)
A 		92.7
(3)
P 		70
avr 49.7
(-1.1) 		60.5
(0.3) 		38.4
(-2.5) 		34.8
(-3) 		49.6
(-1.1) 		82.1
(3) 		47
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193567_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13175
Sequence Type Exemplar sequence
Representative Public ID Y17D7A.3 NCBI
Target Description Y17D7A.3 /REP_DB=WormBase Gene ID /WP=CE16588 /GEN=nhr-65 /TR=O45907 /GB=CAA16292.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
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_001029048(11), NM_001029049(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029048 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-65) (nhr-65) mRNA, complete cds. 11/11 None
NM_001029049 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-65) (nhr-65) mRNA, complete cds. 11/11 None
GENEFINDER00000005607 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:18841891:18847861:1 11/11 None
Y17D7A.3a ENSEMBL cdna:known chromosome:CEL140:V:18841877:18848012:1 gene:Y17D7A.3 11/11 A 
Y17D7A.3b ENSEMBL cdna:known chromosome:CEL140:V:18841891:18847974:1 gene:Y17D7A.3 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:18841890-18847861(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y17D7A.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA16292 Hypothetical protein Y17D7A.3a [Caenorhabditis elegans] ref|NP_001024219.1| Nuclear Hormone Receptor family member (nhr-65) [Caenorhabditis elegans] sp|O45907|NHR65_CAEEL Nuclear hormone receptor family member nhr-65 0.0
blast CAE17952 Hypothetical protein Y17D7A.3b [Caenorhabditis elegans] ref|NP_001024220.1| Nuclear Hormone Receptor family member (nhr-65) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.2E-10
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.0E-4
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000005607 1 460-482
Sequence
Target Sequence 
>C. ELEGANS:193567_AT
aatgcaaggcatttggcacgtgtggtcccgtctgcacaagttggcagtttcagcaatggg
ccggcgacgtggaatttgtgacaaaaatacggttatggtcagccaccagaacgagtttgc
agtatgcgatctaaatgagattgaggtggacatgtcgtggtgcactaattttagcaatga
gcaaatgagatacttcctagacacatcccatgacagttacgtctaccaagtaatggacga
aatgcttggcttgaagccaaatgacgtggaattgagctacatgatgtgccagctgtgtct
acagtatgcaggacaacgatttcagggagaaattctggaattttgcgaaaaaatgctggg
atttttggccgatgacctacatagctactat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATGCAAGGCATTTGGCACGTGTGG 324 165 648 Antisense
GGCAGTTTCAGCAATGGGCCGGCGA 124 533 690 Antisense
GGCCGGCGACGTGGAATTTGTGACA 13 543 706 Antisense
GTCAGCCACCAGAACGAGTTTGCAG 666 465 745 Antisense
GAGGTGGACATGTCGTGGTGCACTA 55 403 790 Antisense
TGAGATACTTCCTAGACACATCCCA 166 569 833 Antisense
GACACATCCCATGACAGTTACGTCT 695 365 847 Antisense
GTAATGGACGAAATGCTTGGCTTGA 299 463 877 Antisense
CATGATGTGCCAGCTGTGTCTACAG 186 211 927 Antisense
TGCTGGGATTTTTGGCCGATGACCT 434 583 1001 Antisense
GGCCGATGACCTACATAGCTACTAT 135 543 1014 Antisense
Sequence Source Affymetrix Proprietary Database