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[190001_at] zinc finger protein

Description T01G6.8 /REP_DB=WormBase Gene ID /WP=CE18167 /TR=O16963 /GB=AAG24183.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_highest_10_10 > 74      6grp_high1_10_10 > 66      4grp_highest_8_8 > 22      4grp_high_8_8 > 14      6grp_highest_nonorm > 72      6grp_total > 58      4grp_total > 02      6grp_highest_sub > Cu      6grp_cgc > 36      6grp_high1_sub > Da      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 780
1 2 3 4 range
A 365.6
(-3)
P 		409.1
(-2.7)
P 		444.1
(-2.4)
P 		1134.3
(3)
P 		769
B 382.7
(-2.8)
P 		363.1
(-3)
P 		449.1
(-2.3)
P 		1100.5
(3)
P 		737
C 354.1
(-3)
P 		381.9
(-2.7)
P 		405.1
(-2.5)
P 		928.5
(3)
P 		574
avr 367.5
(-3) 		384.7
(-2.8) 		432.8
(-2.4) 		1054.4
(3) 		687

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 235
1 2 3 4 5 6 range
A 522.4
(3)
P 		323
(-3)
P 		356.1
(-2)
P 		429.6
(0.2)
P 		373.7
(-1.5)
P 		492.9
(2.1)
P 		199
B 419.8
(3)
P 		326.5
(-2.7)
P 		389.6
(1.1)
P 		408.9
(2.3)
P 		321.9
(-3)
P 		391.1
(1.2)
P 		98
C 359.6
(-0.7)
P 		362.3
(-0.6)
P 		423.5
(1.4)
P 		460.3
(2.6)
P 		287.5
(-3)
P 		472.7
(3)
P 		185
avr 433.9
(2.1) 		337.3
(-2.5) 		389.7
(-0) 		432.9
(2.1) 		327.7
(-3) 		452.2
(3) 		125
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 146
1 2 3 4 range
A 133.1
(0.4)
P 		88.8
(-3)
P 		116.1
(-0.9)
P 		166
(3)
P 		77
B 122
(-1.7)
P 		89.7
(-3)
P 		104.1
(-2.4)
P 		234.5
(3)
P 		145
C 117.2
(-2.1)
P 		109.8
(-3)
P 		141.2
(1)
P 		156.6
(3)
P 		47
avr 124.1
(-1.1) 		96.1
(-3) 		120.5
(-1.4) 		185.7
(3) 		90

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 81
1 2 3 4 5 6 range
A 96.3
(-0.3)
P 		114.9
(2.3)
P 		77.5
(-3)
P 		109
(1.4)
P 		112.8
(2)
P 		120
(3)
P 		43
B 146.1
(3)
P 		108.7
(-1.4)
P 		94.6
(-3)
P 		108.3
(-1.4)
P 		130.8
(1.2)
P 		145.8
(3)
P 		52
C 133.3
(0.7)
P 		110.5
(-1.4)
P 		107.8
(-1.6)
P 		92.6
(-3)
P 		93
(-3)
P 		158.2
(3)
P 		66
avr 125.2
(1) 		111.4
(-0.7) 		93.3
(-3) 		103.3
(-1.8) 		112.2
(-0.6) 		141.3
(3) 		48
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190001_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14998
Sequence Type Exemplar sequence
Representative Public ID T01G6.8 NCBI
Target Description T01G6.8 /REP_DB=WormBase Gene ID /WP=CE18167 /TR=O16963 /GB=AAG24183.1 /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_070815(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070815 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-130) (nhr-130) mRNA, complete cds. 11/11 None
SNAP00000003996 ENSEMBL cdna:SNAP chromosome:CEL140:V:478184:488000:-1 10/11 None
GENEFINDER00000004011 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:480712:483158:-1 11/11 None
T01G6.8 ENSEMBL cdna:known chromosome:CEL140:V:480669:483168:-1 gene:T01G6.8 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:480711-483158(-) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-130
Ensembl T01G6.8
Entrez Gene 187965 Entrez gene
SwissProt O16963 EMBL-EBI
WormBase CE18167 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 AAG24183 Nuclear hormone receptor family protein 130 [Caenorhabditis elegans] ref|NP_503216.1| Nuclear Hormone Receptor family member (nhr-130) [Caenorhabditis elegans] 0.0
blast AAG24183 Nuclear hormone receptor family protein 130 [Caenorhabditis elegans] ref|NP_503216.1| Nuclear Hormone Receptor family member (nhr-130) [Caenorhabditis elegans] 1.0E-158
blast CAE62320 Hypothetical protein CBG06387 [Caenorhabditis briggsae] 1.0E-112
blast AAG24179 Nuclear hormone receptor family protein 55 [Caenorhabditis elegans] ref|NP_503215.2| Nuclear Hormone Receptor family member (nhr-55) [Caenorhabditis elegans] gb|AAO39175.1| nuclear receptor NHR-55 [Caenorhabditis elegans] sp|O16962|NHR55_CAEEL Nuclear hormone receptor family member nhr-55 1.0E-95
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.3E-4
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.3E-18
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.3E-4
Sequence
Target Sequence 
>C. ELEGANS:190001_AT
taatcagcagattctcctcctaaaatccgtttggcacgtttggaaccggctggaaaaact
tgctcttacagccaccagtcgtcggcaaaacgtttgcgagcaaaagcaattaatgctgac
ctacaactctgtgtgcaacccaaaaaccatcgagctggactactcttggttcaccaaata
ccccaaggaacaattgtgcttttttttcgacgaaatggaagactacatgttaacatcagc
tctggacccattaacgagcctagagcccacagatattgagctcacctacatgctttgtca
gctctgcttccactacgcaggaaaaagatacggaggagaaatcctagaagttacagagaa
attccaagagaacctcgctgataatttacacgattattatgtcaatgagctgaatatgcc
gagatattgcggacggctcaatcaaatgctgaaaattaataatttaatccagcaagacat
ttgggagaaacgtgcaaaacacgagctcgccaaagtttttga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TAATCAGCAGATTCTCCTCCTAAAA 596 635 762 Antisense
TCCTCCTAAAATCCGTTTGGCACGT 701 589 776 Antisense
AAAAACTTGCTCTTACAGCCACCAG 637 129 815 Antisense
AGCCACCAGTCGTCGGCAAAACGTT 333 83 831 Antisense
GCTGACCTACAACTCTGTGTGCAAC 37 297 876 Antisense
TCGAGCTGGACTACTCTTGGTTCAC 369 601 911 Antisense
ACATCAGCTCTGGACCCATTAACGA 208 105 994 Antisense
CATTAACGAGCCTAGAGCCCACAGA 259 215 1010 Antisense
GCCCACAGATATTGAGCTCACCTAC 555 287 1026 Antisense
ACCTACATGCTTTGTCAGCTCTGCT 508 87 1045 Antisense
AACACGAGCTCGCCAAAGTTTTTGA 83 137 1259 Antisense
Sequence Source Affymetrix Proprietary Database