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[189964_at] zinc finger protein

Description T01G6.4 /REP_DB=WormBase Gene ID /WP=CE27433 /TR=O16966 /GB=AAG24181.2 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_high1_10_10 > 83      4grp_high_8_8 > 06      6grp_total > 74      4grp_total > 01      6grp_cgc > 77      6grp_high1_sub > 04      6grp_cgc_sub > 04_05_06      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 254
1 2 3 4 range
A 120.2
(-3)
P 		147.8
(-2.3)
A 		137.5
(-2.5)
P 		346.1
(3)
P 		226
B 183.7
(-2.2)
P 		155.1
(-3)
A 		195
(-1.9)
P 		374.5
(3)
P 		219
C 157.9
(-2.5)
P 		145.2
(-3)
P 		170.6
(-2.1)
P 		308.9
(3)
P 		164
avr 153.9
(-2.9) 		149.4
(-3) 		167.7
(-2.4) 		343.2
(3) 		194

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 130
1 2 3 4 5 6 range
A 89.9
(-3)
A 		120.8
(-1.1)
P 		155.6
(1.1)
P 		187.1
(3)
P 		129.8
(-0.5)
P 		174.3
(2.2)
P 		97
B 116.2
(-1.7)
P 		87.1
(-3)
P 		166.2
(0.6)
P 		190.1
(1.8)
P 		174.3
(1)
P 		217.2
(3)
P 		130
C 145.8
(0.1)
P 		90.5
(-3)
A 		165.8
(1.3)
P 		196.3
(3)
P 		167.6
(1.4)
P 		161.9
(1)
P 		106
avr 117.3
(-1.8) 		99.5
(-3) 		162.5
(1.1) 		191.2
(3) 		157.2
(0.8) 		184.5
(2.6) 		92
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 48
1 2 3 4 range
A 43.8
(0.8)
P 		32.1
(-3)
A 		35.9
(-1.8)
P 		50.7
(3)
P 		19
B 58.6
(-0.1)
P 		38.3
(-3)
A 		45.2
(-2)
P 		79.8
(3)
P 		42
C 52.3
(0.6)
P 		41.8
(-3)
P 		59.4
(3)
P 		52.1
(0.5)
P 		18
avr 51.6
(0.6) 		37.4
(-3) 		46.8
(-0.6) 		60.9
(3) 		24

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 64
1 2 3 4 5 6 range
A 16.6
(-3)
A 		43
(2.1)
P 		33.9
(0.4)
P 		47.4
(3)
P 		39.2
(1.4)
P 		42.4
(2)
P 		31
B 40.4
(-1.7)
P 		29
(-3)
P 		40.3
(-1.7)
P 		50.3
(-0.5)
P 		70.8
(1.8)
P 		81
(3)
P 		52
C 54.1
(3)
P 		27.6
(-3)
A 		42.2
(0.3)
P 		39.5
(-0.3)
P 		54.2
(3)
P 		54.2
(3)
P 		27
avr 37
(-2.1) 		33.2
(-3) 		38.8
(-1.7) 		45.7
(-0.1) 		54.7
(2) 		59.2
(3) 		26
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189964_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15333
Sequence Type Exemplar sequence
Representative Public ID T01G6.4 NCBI
Target Description T01G6.4 /REP_DB=WormBase Gene ID /WP=CE27433 /TR=O16966 /GB=AAG24181.2 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger 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_070818(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070818 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-106) (nhr-106) mRNA, complete cds. 11/11 None
SNAP00000003999 ENSEMBL cdna:SNAP chromosome:CEL140:V:489919:491236:1 11/11 None
GENEFINDER00000004007 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:489531:491371:1 11/11 None
T01G6.4 ENSEMBL cdna:known chromosome:CEL140:V:489476:491257:1 gene:T01G6.4 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:489530-491236(+) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-106
Ensembl T01G6.4
Entrez Gene 178571 Entrez gene
SwissProt O16966 EMBL-EBI
WormBase CE27433 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
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAG24181 Nuclear hormone receptor family protein 106 [Caenorhabditis elegans] ref|NP_503219.1| Nuclear Hormone Receptor family member (nhr-106) [Caenorhabditis elegans] gb|AAO39194.1| nuclear receptor NHR-106 [Caenorhabditis elegans] 0.0
blast T32193 hypothetical protein T01G6.4 - Caenorhabditis elegans 0.0
blast AAG24181 Nuclear hormone receptor family protein 106 [Caenorhabditis elegans] ref|NP_503219.1| Nuclear Hormone Receptor family member (nhr-106) [Caenorhabditis elegans] gb|AAO39194.1| nuclear receptor NHR-106 [Caenorhabditis elegans] 1.0E-145
blast T32193 hypothetical protein T01G6.4 - Caenorhabditis elegans 1.0E-145
blast AAG24178 Hypothetical protein T01G6.5 [Caenorhabditis elegans] ref|NP_503218.1| T01G6.5 [Caenorhabditis elegans] 1.0E-116
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.9E-10
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.0E-4
Sequence
Target Sequence 
>C. ELEGANS:189964_AT
aatggctgactcgtcttcaagatttttgtacgttaccaatgagaattcagatgcaacttc
tacaaaccatttggcacgtatggtcccgtatgtacaaggttgtaaagtcttcagagctaa
gaaagaaacatgctgacagctcaaatctttttcaagttttggatcaatttcatgtgaact
taggcaccactaaattggatgtatcgtggctcacaacgtatagctatgaggaaataaaat
attttctatacggcattgacgatgatatctacctacagagtgcaataactgcagcatcaa
aattagaattaacagatgttgagctcacttatatggctgctcagacttgctttcagtacg
cacagaaccgattcgctggcacggaaattgccgaagtttgcgccaagtttcaagagatcc
ttgccaacgatctgcacacttattacacaaaagatcataagagaaccagtaactatgctg
gcaagctgtcgcaga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATGGCTGACTCGTCTTCAAGATTT 633 161 593 Antisense
TTGGCACGTATGGTCCCGTATGTAC 439 707 663 Antisense
GCTGACAGCTCAAATCTTTTTCAAG 144 297 724 Antisense
GGATGTATCGTGGCTCACAACGTAT 150 515 789 Antisense
GCTCACTTATATGGCTGCTCAGACT 571 301 915 Antisense
GCTCAGACTTGCTTTCAGTACGCAC 56 301 931 Antisense
GTACGCACAGAACCGATTCGCTGGC 121 459 948 Antisense
ATTGCCGAAGTTTGCGCCAAGTTTC 487 7 979 Antisense
GAGATCCTTGCCAACGATCTGCACA 156 397 1006 Antisense
AACGATCTGCACACTTATTACACAA 401 145 1018 Antisense
AACTATGCTGGCAAGCTGTCGCAGA 200 139 1063 Antisense
Sequence Source Affymetrix Proprietary Database