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[190172_at]

Description T12C9.1 /REP_DB=WormBase Gene ID /WP=CE26822 /GB=AAK18975.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=zinc finger DNA-binding protein
Cluster 6grp_highest_10_10 > 27      6grp_high1_10_10 > 72      4grp_highest_8_8 > 38      4grp_high_8_8 > 03      6grp_highest_nonorm > 90      6grp_total > 71      4grp_total > 06      6grp_highest_sub > 03_04      6grp_cgc > 85      6grp_high1_sub > 04      6grp_cgc_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 111
1 2 3 4 range
A 173.2
(1.9)
P 		83.3
(-3)
P 		189.1
(2.7)
P 		194.1
(3)
P 		111
B 151
(0)
P 		156.3
(0.4)
P 		108.3
(-3)
P 		193.6
(3)
P 		85
C 167
(-0.6)
P 		162.2
(-1.3)
P 		150.3
(-3)
P 		192.1
(3)
P 		42
avr 163.7
(0) 		133.9
(-3) 		149.2
(-1.5) 		193.3
(3) 		59

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 189
1 2 3 4 5 6 range
A 159.8
(-1.8)
P 		137.5
(-3)
P 		174.4
(-1)
P 		248.5
(3)
P 		141.1
(-2.8)
P 		154.6
(-2.1)
P 		111
B 97.7
(-2)
P 		118.3
(-0.7)
P 		179
(2.9)
P 		180.4
(3)
P 		144.5
(0.8)
P 		80.3
(-3)
P 		100
C 65.3
(-3)
P 		139.4
(-0.7)
P 		209.8
(1.6)
P 		254.6
(3)
P 		136.5
(-0.7)
P 		139.6
(-0.6)
P 		189
avr 107.6
(-3) 		131.7
(-1.8) 		187.7
(1) 		227.8
(3) 		140.7
(-1.3) 		124.8
(-2.1) 		120
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 45
1 2 3 4 range
A 63.1
(3)
P 		18.1
(-3)
P 		49.4
(1.2)
P 		28.4
(-1.6)
P 		45
B 48.2
(3)
P 		38.6
(0.5)
P 		25.1
(-3)
P 		41.2
(1.2)
P 		23
C 55.3
(3)
P 		46.6
(0.7)
P 		52.4
(2.2)
P 		32.4
(-3)
P 		23
avr 55.5
(3) 		34.4
(-2.9) 		42.3
(-0.7) 		34
(-3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 39
1 2 3 4 5 6 range
A 29.5
(-3)
P 		48.9
(0.5)
P 		38
(-1.5)
P 		63
(3)
P 		42.6
(-0.7)
P 		37.6
(-1.5)
P 		34
B 34
(-2.1)
P 		39.4
(-1)
P 		43.5
(-0.2)
P 		47.8
(0.7)
P 		58.7
(3)
P 		29.9
(-3)
P 		29
C 24.2
(-3)
P 		42.5
(0.8)
P 		53.4
(3)
P 		51.2
(2.5)
P 		44.2
(1.1)
P 		46.7
(1.6)
P 		29
avr 29.2
(-3) 		43.6
(0.5) 		45
(0.8) 		54
(3) 		48.5
(1.7) 		38.1
(-0.8) 		25
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190172_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4503
Sequence Type Exemplar sequence
Representative Public ID T12C9.1 NCBI
Target Description T12C9.1 /REP_DB=WormBase Gene ID /WP=CE26822 /GB=AAK18975.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=zinc finger DNA-binding protein
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_062384(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062384 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-16) (nhr-16) mRNA, complete cds. 11/11 None
SNAP00000005697 ENSEMBL cdna:SNAP chromosome:CEL140:II:4438902:4451127:1 11/11 None
GENEFINDER00000005708 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:4438902:4440815:1 11/11 None
T12C9.6 ENSEMBL cdna:known chromosome:CEL140:II:4438859:4440857:1 gene:T12C9.6 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
chrII:4435367-4440814(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol nhr-16
Ensembl T12C9.6
Entrez Gene 173781 Entrez gene
SwissProt Q27521 EMBL-EBI
WormBase CE28079 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 AAK67239 Nuclear hormone receptor family protein 16 [Caenorhabditis elegans] ref|NP_494785.1| Nuclear Hormone Receptor family member (nhr-16) [Caenorhabditis elegans] gb|AAD03689.1| nuclear receptor NHR-16 [Caenorhabditis elegans] sp|Q27521|NHR16_CAEEL Nuclear hormone receptor family member nhr-16 0.0
blast G88124 protein nhr-16 [imported] - Caenorhabditis elegans 0.0
blast AAK18975 Hypothetical protein T12C9.1 [Caenorhabditis elegans] ref|NP_494784.1| T12C9.1 [Caenorhabditis elegans] 1.0E-139
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.2E-13
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.5E-27
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.2E-13
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.6E-15
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.7E-7
Sequence
Target Sequence 
>C. ELEGANS:190172_AT
acttctgattgggtttcctggtgctttgaggatttcaaaaatctttcaattgatcaaaaa
aaaatcctgtttcacaatgcctatactccatatttcatgatggaaggtgggttcttgagc
catatcaggaatacaccagagcatcttgtaatgccatccggggactatatagatacactg
gatttgaactcattctacaattgttcagagtcggataggcaaatttcaagtaaagaaatt
gacagattattcaaaccttcaaacgatcgtttcatcaaatctgtcacacttccaatgatg
tctcttcaactcgacatttttgaatttttcgttctattcacactgctgctctgggatact
ggactcattgaaattagcgaagaatgcattgaaattggaactaaagttaaaactcaagta
ttgaaagaactcgatttttatatgaggaatgtgaagaaagtcgaagagcctcttgtcaga
acagccaatattgtcaatcttctcccagctgttcaaaaaggtgtccggagaattcaggac
gatttggaagtgacaaaagtttttgatctctatacggcttctg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACTTCTGATTGGGTTTCCTGGTGCT 42 105 559 Antisense
CCTGTTTCACAATGCCTATACTCCA 395 265 624 Antisense
GAAGGTGGGTTCTTGAGCCATATCA 126 335 661 Antisense
CATCTTGTAATGCCATCCGGGGACT 587 211 700 Antisense
GTTTCATCAAATCTGTCACACTTCC 621 449 827 Antisense
GTCACACTTCCAATGATGTCTCTTC 344 465 841 Antisense
ATTTTTCGTTCTATTCACACTGCTG 82 15 882 Antisense
CTGCTCTGGGATACTGGACTCATTG 293 237 904 Antisense
AGAGCCTCTTGTCAGAACAGCCAAT 61 71 1023 Antisense
GCCAATATTGTCAATCTTCTCCCAG 607 277 1042 Antisense
GTTTTTGATCTCTATACGGCTTCTG 403 449 1117 Antisense
Sequence Source Affymetrix Proprietary Database