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[189999_at] zinc finger protein

Description F44C8.8 /REP_DB=WormBase Gene ID /WP=CE10392 /TR=O16354 /GB=AAB65895.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_highest_10_10 > 62      6grp_high1_10_10 > 36      4grp_highest_8_8 > 31      4grp_high_8_8 > 13      6grp_highest_nonorm > 80      6grp_total > 36      4grp_total > 11      6grp_highest_sub > Cu      6grp_cgc > 25      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 257
1 2 3 4 range
A 230.9
(-1.9)
P 		253.1
(-1.3)
P 		185.3
(-3)
P 		428.7
(3)
P 		243
B 263.1
(-1.6)
P 		265.2
(-1.5)
P 		206.2
(-3)
P 		441.9
(3)
P 		236
C 209.9
(-3)
P 		220.8
(-2.7)
P 		210
(-3)
P 		433.9
(3)
P 		224
avr 234.6
(-2.1) 		246.4
(-1.8) 		200.5
(-3) 		434.8
(3) 		234

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 129
1 2 3 4 5 6 range
A 241.5
(3)
P 		213.6
(1.2)
P 		225.7
(2)
P 		150
(-3)
P 		192.3
(-0.2)
P 		222.5
(1.8)
P 		92
B 242.7
(3)
P 		210.9
(0.1)
P 		205.9
(-0.4)
P 		241.2
(2.9)
P 		194.5
(-1.4)
P 		177.3
(-3)
P 		65
C 222.7
(1.5)
P 		255.2
(3)
P 		145.9
(-2.1)
P 		234.1
(2)
P 		126
(-3)
P 		215.8
(1.2)
P 		129
avr 235.6
(3) 		226.6
(2.2) 		192.5
(-1) 		208.4
(0.5) 		170.9
(-3) 		205.2
(0.2) 		65
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 46
1 2 3 4 range
A 84.1
(3)
P 		54.9
(-1.9)
P 		48.4
(-3)
P 		62.8
(-0.6)
P 		36
B 83.9
(1.7)
P 		65.5
(-0.7)
P 		47.8
(-3)
P 		94.2
(3)
P 		46
C 69.5
(0.7)
P 		63.5
(-3)
P 		73.2
(3)
P 		73.2
(3)
P 		10
avr 79.2
(3) 		61.3
(-1.7) 		56.5
(-3) 		76.7
(2.3) 		23

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 47
1 2 3 4 5 6 range
A 44.5
(-2)
P 		76
(3)
P 		49.1
(-1.2)
P 		38
(-3)
P 		58
(0.2)
P 		54.2
(-0.4)
P 		38
B 84.4
(3)
P 		70.2
(0.5)
P 		50
(-3)
P 		63.9
(-0.6)
P 		79
(2.1)
P 		66.1
(-0.2)
P 		34
C 82.5
(3)
P 		77.9
(2.4)
P 		37.1
(-3)
P 		47.1
(-1.7)
P 		40.8
(-2.5)
P 		72.2
(1.6)
P 		45
avr 70.5
(2.1) 		74.7
(3) 		45.4
(-3) 		49.7
(-2.1) 		59.3
(-0.2) 		64.2
(0.8) 		29
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189999_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15049
Sequence Type Exemplar sequence
Representative Public ID F44C8.8 NCBI
Target Description F44C8.8 /REP_DB=WormBase Gene ID /WP=CE10392 /TR=O16354 /GB=AAB65895.1 /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_071201(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071201 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-133) (nhr-133) mRNA, complete cds. 11/11 None
SNAP00000011139 ENSEMBL cdna:SNAP chromosome:CEL140:V:2210376:2211901:-1 11/11 None
GENEFINDER00000011150 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2210376:2211901:-1 11/11 None
F44C8.8 ENSEMBL cdna:known chromosome:CEL140:V:2210341:2211930:-1 gene:F44C8.8 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:2210375-2211901(-) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-133
Ensembl F44C8.8
Entrez Gene 185729 Entrez gene
SwissProt O16354 EMBL-EBI
WormBase CE10392 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 AAB65895 Nuclear hormone receptor family protein 133 [Caenorhabditis elegans] ref|NP_503602.1| Nuclear Hormone Receptor family member (nhr-133) [Caenorhabditis elegans] 0.0
blast AAQ62455 Hypothetical protein F44C8.9a [Caenorhabditis elegans] ref|NP_001023926.1| F44C8.9a [Caenorhabditis elegans] 1.0E-128
blast CAE58160 Hypothetical protein CBG01250 [Caenorhabditis briggsae] 1.0E-128
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 5.1E-10
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.4E-5
Sequence
Target Sequence 
>C. ELEGANS:189999_AT
gtttgccaggcttccagaattttcgatgctagacccgcaaattaagatagatattctcaa
aacttcctggatgatttgggctcgactggacaagctagcagcaactgcggattttcatag
acaaaaattgctgggaaatgatgtatacatgtggacagacaatacttgcatgaatcctgg
aaatgttaaaatcgatataaaatggagttcgaactattctgtggagcagttgagaggatt
tctagtccccgatatcgaaaaatactggcgacatgctctttcggacctggtagaactgga
ccccacaaacgttgagctcaacttcatgctcattcagttgtgcctgaacagtgctgggca
gaaatatcagggccacgtgctagaagccactg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTTGCCAGGCTTCCAGAATTTTCG 173 451 627 Antisense
GAATTTTCGATGCTAGACCCGCAAA 309 325 643 Antisense
CTTCCTGGATGATTTGGGCTCGACT 420 219 689 Antisense
GGGCTCGACTGGACAAGCTAGCAGC 68 493 704 Antisense
GCAGCAACTGCGGATTTTCATAGAC 496 313 724 Antisense
GGATTTCTAGTCCCCGATATCGAAA 245 505 862 Antisense
AATACTGGCGACATGCTCTTTCGGA 339 173 887 Antisense
TCGGACCTGGTAGAACTGGACCCCA 52 605 907 Antisense
GAACTGGACCCCACAAACGTTGAGC 204 169 919 Antisense
CTTCATGCTCATTCAGTTGTGCCTG 227 221 948 Antisense
CAGGGCCACGTGCTAGAAGCCACTG 551 205 994 Antisense
Sequence Source Affymetrix Proprietary Database