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[174017_at]

Description g10198017 /REP_DB=GenBank Identifier /CHR=1 /FEA=Genomic Cluster
Cluster 6grp_highest_10_10 > 83      6grp_high1_10_10 > 47      4grp_highest_8_8 > 39      4grp_high_8_8 > 04      6grp_highest_nonorm > 58      6grp_total > 48      4grp_total > 05      6grp_highest_sub > Cu      6grp_cgc > 17      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2936
1 2 3 4 range
A 3296.1
(-0.3)
P 		2711.7
(-1.7)
P 		2138.6
(-3)
P 		4688.9
(3)
P 		2550
B 3792
(0.1)
P 		2466.3
(-3)
P 		2634.9
(-2.6)
P 		5048.9
(3)
P 		2583
C 3167.1
(-1.6)
P 		2665.1
(-2.9)
P 		2611.6
(-3)
P 		5074.1
(3)
P 		2463
avr 3418.4
(-0.7) 		2614.4
(-2.6) 		2461.7
(-3) 		4937.3
(3) 		2476

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2347
1 2 3 4 5 6 range
A 4035.9
(3)
P 		2506.2
(-0.9)
P 		2255.1
(-1.6)
P 		1688.6
(-3)
P 		2358.6
(-1.3)
P 		2888.5
(0.1)
P 		2347
B 3323.5
(2.8)
P 		2691.5
(-0.1)
P 		2561.8
(-0.7)
P 		2444.2
(-1.2)
P 		2060.7
(-3)
P 		3365.3
(3)
P 		1305
C 2901.9
(0.4)
P 		2552.9
(-0.8)
P 		2119.9
(-2.3)
P 		2007.6
(-2.7)
P 		1927.4
(-3)
P 		3628.6
(3)
P 		1701
avr 3420.4
(3) 		2583.5
(-0.7) 		2312.3
(-1.8) 		2046.8
(-3) 		2115.6
(-2.7) 		3294.1
(2.4) 		1374
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 650
1 2 3 4 range
A 1200.1
(3)
P 		588.6
(-2.7)
P 		559.1
(-3)
P 		686.4
(-1.8)
P 		641
B 1209.2
(3)
P 		609.1
(-3)
P 		610.6
(-3)
P 		1075.9
(1.7)
P 		600
C 1048.4
(3)
P 		766.2
(-3)
P 		910.2
(0.1)
P 		855.6
(-1.1)
P 		282
avr 1152.6
(3) 		654.6
(-3) 		693.3
(-2.5) 		872.6
(-0.4) 		498

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 851
1 2 3 4 5 6 range
A 744
(1.1)
P 		891.3
(3)
P 		491.1
(-2.2)
P 		428.3
(-3)
P 		711.7
(0.7)
P 		703.2
(0.6)
P 		463
B 1156.4
(2.1)
P 		895.9
(-0.4)
P 		622.1
(-3)
P 		647.4
(-2.8)
P 		837.2
(-1)
P 		1254.9
(3)
P 		633
C 1075.6
(2)
P 		779
(-0.2)
P 		539.5
(-2)
P 		403.7
(-3)
P 		623.7
(-1.4)
P 		1214.7
(3)
P 		811
avr 992
(2.3) 		855.4
(0.9) 		550.9
(-2.4) 		493.1
(-3) 		724.2
(-0.5) 		1057.6
(3) 		565
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 174017_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20211
Sequence Type Exemplar sequence
Representative Public ID 10198017 NCBI
Target Description g10198017 /REP_DB=GenBank Identifier /CHR=1 /FEA=Genomic Cluster
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_181998(11), NM_060212(11), AF273792(11), AF273794(11), AF332206(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_181998 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-49) (nhr-49) mRNA, complete cds. 11/11 None
NM_060212 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-49) (nhr-49) mRNA, complete cds. 11/11 None
AF273792 NCBI Caenorhabditis elegans clone yk212f7 nuclear receptor NHR-49 mRNA, partial cds. 11/11 A 
AF273794 NCBI Caenorhabditis elegans clone yk26f4 nuclear receptor NHR-49 mRNA, partial cds. 11/11 None
AF332206 NCBI Caenorhabditis elegans clone yk598a1 nuclear receptor NHR-49 gene, partial cds. 11/11 None
K10C3.6c.1 ENSEMBL cdna:known chromosome:CEL140:I:9877784:9882797:1 gene:K10C3.6 11/11 A 
K10C3.6c.2 ENSEMBL cdna:known chromosome:CEL140:I:9877807:9882894:1 gene:K10C3.6 11/11 A 
K10C3.6b.2 ENSEMBL cdna:known chromosome:CEL140:I:9879318:9882749:1 gene:K10C3.6 11/11 A 
K10C3.6b.1 ENSEMBL cdna:known chromosome:CEL140:I:9879349:9882749:1 gene:K10C3.6 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
172839 4 2 NM_060212 174017_at (11)
NM_181998 174017_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:9882317-9882704(+) 100.0 100.0
Public Domain and Genome References
Ensembl K10C3.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAD57702 Hypothetical protein K10C3.6c [Caenorhabditis elegans] ref|NP_871798.1| Nuclear Hormone Receptor family member (nhr-49) [Caenorhabditis elegans] sp|O45666|NHR49_CAEEL Nuclear hormone receptor family member nhr-49 0.0
blast CAD57703 Hypothetical protein K10C3.6d [Caenorhabditis elegans] ref|NP_871799.1| Nuclear Hormone Receptor family member (nhr-49) [Caenorhabditis elegans] 0.0
blast CAB05772 Hypothetical protein K10C3.6a [Caenorhabditis elegans] ref|NP_492612.1| Nuclear Hormone Receptor family member (nhr-49) [Caenorhabditis elegans] 0.0
blast CAD21653 Hypothetical protein K10C3.6b [Caenorhabditis elegans] ref|NP_492613.1| Nuclear Hormone Receptor family member (nhr-49) [Caenorhabditis elegans] 0.0
blast AAG15143 nuclear receptor NHR-49 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.4E-50
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.5E-48
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.4E-50
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.5E-48
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.4E-50
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.4E-46
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.5E-48
Sequence
Target Sequence 
>C. ELEGANS:174017_AT
aaagaagaatacccttccgtctcagtagttgtttcatcttgaaacctgtctaggccatct
ctatatcatatcaggttattgttctcgtctcccccaactcttcttccttaatcttttttc
cagacgggctggctctcgtttattcttgtgattattattgtcaatcaaattatcagttta
gtacttcaatatgtataagaagtgactgtcttggcatttcccatctctatttagaagatt
cccttcttcccattttccttccttcttttcaagcgttcgtaccaatttatgtttgcaaaa
agaaacttttatttatactttttcaaagctcatcga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAGAAGAATACCCTTCCGTCTCAG 345 121 24 Antisense
TGAAACCTGTCTAGGCCATCTCTAT 351 573 63 Antisense
AGGCCATCTCTATATCATATCAGGT 560 53 75 Antisense
ATATCAGGTTATTGTTCTCGTCTCC 214 21 91 Antisense
ATCTTTTTTCCAGACGGGCTGGCTC 205 21 134 Antisense
CTGGCTCTCGTTTATTCTTGTGATT 412 241 152 Antisense
AAGTGACTGTCTTGGCATTTCCCAT 444 159 223 Antisense
TTTAGAAGATTCCCTTCTTCCCATT 422 673 253 Antisense
CTTCTTTTCAAGCGTTCGTACCAAT 141 219 285 Antisense
GCGTTCGTACCAATTTATGTTTGCA 124 291 296 Antisense
TTTATACTTTTTCAAAGCTCATCGA 265 675 335 Antisense
Sequence Source GenBank