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[192613_at]

Description Y70C5C.6 /REP_DB=WormBase Gene ID /WP=CE16678 /TR=O62496 /GB=CAB16534.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_total > 05      4grp_total > 46      6grp_cgc > 41      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 72
1 2 3 4 range
A 67.5
(3)
A 		22.2
(-1.6)
A 		8.6
(-3)
A 		12.7
(-2.6)
A 		59
B 64.7
(3)
A 		53.6
(1.9)
A 		5.6
(-3)
A 		23.2
(-1.2)
A 		59
C 77.3
(3)
P 		6.9
(-2.9)
A 		11.5
(-2.5)
A 		5.7
(-3)
A 		72
avr 69.8
(3) 		27.6
(-1.1) 		8.6
(-3) 		13.9
(-2.5) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 72
1 2 3 4 5 6 range
A 41.9
(-3)
A 		67.2
(1.7)
A 		49.4
(-1.6)
A 		73.9
(3)
A 		61.5
(0.7)
A 		64.9
(1.3)
A 		32
B 81.9
(3)
P 		63.3
(1)
A 		68.5
(1.6)
A 		56.1
(0.2)
A 		47.4
(-0.7)
A 		25.9
(-3)
A 		56
C 82
(3)
A 		58.5
(1)
A 		19.4
(-2.2)
A 		10.2
(-3)
A 		48.6
(0.2)
A 		20.8
(-2.1)
A 		72
avr 68.6
(3) 		63
(1.9) 		45.8
(-1.4) 		46.7
(-1.2) 		52.5
(-0.1) 		37.2
(-3) 		31
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 25
1 2 3 4 range
A 24.6
(3)
A 		4.8
(-2.2)
A 		2.3
(-2.9)
A 		1.9
(-3)
A 		23
B 20.6
(3)
A 		13.2
(0.7)
A 		1.3
(-3)
A 		4.9
(-1.9)
A 		19
C 25.6
(3)
P 		2
(-2.8)
A 		4
(-2.3)
A 		1
(-3)
A 		25
avr 23.6
(3) 		6.7
(-1.8) 		2.5
(-3) 		2.6
(-3) 		21

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 28
1 2 3 4 5 6 range
A 7.7
(-3)
A 		23.9
(3)
A 		10.8
(-1.9)
A 		18.7
(1.1)
A 		18.6
(1)
A 		15.8
(0)
A 		16
B 28.5
(3)
P 		21.1
(0.6)
A 		16.6
(-0.8)
A 		14.9
(-1.3)
A 		19.3
(0.1)
A 		9.7
(-3)
A 		19
C 30.4
(3)
A 		17.8
(0.3)
A 		4.9
(-2.4)
A 		2.1
(-3)
A 		15.7
(-0.1)
A 		7
(-2)
A 		28
avr 22.2
(3) 		20.9
(2.3) 		10.8
(-3) 		11.9
(-2.4) 		17.9
(0.7) 		10.8
(-3) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192613_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13308
Sequence Type Exemplar sequence
Representative Public ID Y70C5C.6 NCBI
Target Description Y70C5C.6 /REP_DB=WormBase Gene ID /WP=CE16678 /TR=O62496 /GB=CAB16534.1 /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,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_001029116(11), NM_001029115(11), AY204198(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029116 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-112) (nhr-112) mRNA, complete cds. 11/11 None
NM_001029115 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-112) (nhr-112) mRNA, complete cds. 11/11 None
AY204198 NCBI Caenorhabditis elegans clone yk380c6 nuclear receptor (NHR-112) pseudogene mRNA, complete sequence. 10/11 None
SNAP00000034985 ENSEMBL cdna:SNAP chromosome:CEL140:V:16724734:16725919:-1 11/11 None
GENEFINDER00000034990 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:16724734:16726408:-1 11/11 None
Y70C5C.6b ENSEMBL cdna:known chromosome:CEL140:V:16724643:16726425:-1 gene:Y70C5C.6 11/11 A 
Y70C5C.6a ENSEMBL cdna:known chromosome:CEL140:V:16724734:16726425:-1 gene:Y70C5C.6 11/11 A 
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:16724733-16726408(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y70C5C.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAB16534 Hypothetical protein Y70C5C.6a [Caenorhabditis elegans] ref|NP_001024286.1| Nuclear Hormone Receptor family member (nhr-112) [Caenorhabditis elegans] 0.0
blast CAE46680 Hypothetical protein Y70C5C.6b [Caenorhabditis elegans] ref|NP_001024287.1| Nuclear Hormone Receptor family member (nhr-112) [Caenorhabditis elegans] 1.0E-171
blast CAB16534 Hypothetical protein Y70C5C.6a [Caenorhabditis elegans] ref|NP_001024286.1| Nuclear Hormone Receptor family member (nhr-112) [Caenorhabditis elegans] 1.0E-159
blast CAE46680 Hypothetical protein Y70C5C.6b [Caenorhabditis elegans] ref|NP_001024287.1| Nuclear Hormone Receptor family member (nhr-112) [Caenorhabditis elegans] 1.0E-159
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.1E-6
Sequence
Target Sequence 
>C. ELEGANS:192613_AT
agagatcttgaattgacgtggcggatggttagcaaggccttcccaactgtagaagtactt
gaggacagggatagacaagctctgttacggaactttgtgccaaaattatggcagattgag
ccaatcctcgagtaccgggagtgtgctgaaaagttcgataatctggaggaagaggattat
gaaaatttgctggttgggttttatggtggaacatttccagaagggaaggaaatgtctaaa
tctgaaattgttagtaacttccggccatactgggattactactacac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGAGATCTTGAATTGACGTGGCGGA 79 69 424 Antisense
TGGCGGATGGTTAGCAAGGCCTTCC 242 545 442 Antisense
GCAAGGCCTTCCCAACTGTAGAAGT 241 321 455 Antisense
AGGGATAGACAAGCTCTGTTACGGA 237 59 490 Antisense
GCTCTGTTACGGAACTTTGTGCCAA 171 299 502 Antisense
ATGGCAGATTGAGCCAATCCTCGAG 307 53 531 Antisense
GCCAATCCTCGAGTACCGGGAGTGT 484 277 543 Antisense
GAGTACCGGGAGTGTGCTGAAAAGT 232 387 553 Antisense
TTTGCTGGTTGGGTTTTATGGTGGA 530 667 609 Antisense
ATTGTTAGTAACTTCCGGCCATACT 690 1 670 Antisense
GGCCATACTGGGATTACTACTACAC 540 543 686 Antisense
Sequence Source Affymetrix Proprietary Database