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[190260_at] zinc finger protein

Description F16B4.11 /REP_DB=WormBase Gene ID /WP=CE17021 /TR=O44637 /GB=AAB94231.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_total > 12      4grp_total > 30      6grp_cgc > 62      6grp_cgc_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 117
1 2 3 4 range
A 119.8
(3)
A 		81
(-0)
A 		44.1
(-2.9)
A 		43.1
(-3)
A 		77
B 122.4
(3)
A 		43.2
(-2.9)
A 		42.4
(-3)
A 		70.5
(-0.9)
A 		80
C 122.7
(0.8)
A 		58.8
(-3)
A 		60.1
(-2.9)
A 		159.6
(3)
A 		101
avr 121.6
(3) 		61
(-2) 		48.9
(-3) 		91.1
(0.5) 		73

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 110
1 2 3 4 5 6 range
A 79.8
(-3)
A 		130.2
(3)
A 		99.8
(-0.6)
A 		109.1
(0.5)
A 		103.2
(-0.2)
A 		95.9
(-1.1)
A 		50
B 141.3
(0.8)
A 		179.4
(3)
A 		135.3
(0.4)
A 		92.4
(-2.1)
A 		76.7
(-3)
A 		78.6
(-2.9)
A 		103
C 118.5
(-0.4)
A 		180.9
(3)
A 		148.4
(1.2)
A 		131.8
(0.3)
A 		71.1
(-3)
A 		78.4
(-2.6)
A 		110
avr 113.2
(-0.8) 		163.5
(3) 		127.8
(0.3) 		111.1
(-0.9) 		83.7
(-3) 		84.3
(-3) 		80
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 37
1 2 3 4 range
A 43.6
(3)
A 		17.6
(-1.2)
A 		11.5
(-2.2)
A 		6.3
(-3)
A 		37
B 39
(3)
A 		10.7
(-2.8)
A 		9.8
(-3)
A 		15
(-1.9)
A 		29
C 40.6
(3)
A 		16.9
(-3)
A 		21
(-2)
A 		26.9
(-0.5)
A 		24
avr 41.1
(3) 		15.1
(-2.8) 		14.1
(-3) 		16.1
(-2.6) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 45
1 2 3 4 5 6 range
A 14.7
(-3)
A 		46.3
(3)
A 		21.7
(-1.7)
A 		27.7
(-0.5)
A 		31.2
(0.1)
A 		23.3
(-1.4)
A 		32
B 49.2
(1.2)
A 		59.7
(3)
A 		32.9
(-1.6)
A 		24.5
(-3)
A 		31.2
(-1.9)
A 		29.3
(-2.2)
A 		35
C 43.9
(0.9)
A 		55.2
(3)
A 		37.8
(-0.2)
A 		26.5
(-2.3)
A 		23
(-3)
A 		26.2
(-2.4)
A 		32
avr 35.9
(-0.9) 		53.7
(3) 		30.8
(-2) 		26.2
(-3) 		28.5
(-2.5) 		26.3
(-3) 		28
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190260_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14933
Sequence Type Exemplar sequence
Representative Public ID F16B4.11 NCBI
Target Description F16B4.11 /REP_DB=WormBase Gene ID /WP=CE17021 /TR=O44637 /GB=AAB94231.1 /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_071056(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071056 NCBI Caenorhabditis elegans F16B4.11 (F16B4.11) mRNA, complete cds. 11/11 None
SNAP00000004026 ENSEMBL cdna:SNAP chromosome:CEL140:V:1612632:1617771:-1 11/11 None
GENEFINDER00000004033 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1615592:1617771:-1 11/11 None
F16B4.11 ENSEMBL cdna:known chromosome:CEL140:V:1615592:1617771:-1 gene:F16B4.11 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:1615591-1617771(-) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-179
Ensembl F16B4.11
Entrez Gene 184562 Entrez gene
SwissProt O44637 EMBL-EBI
WormBase CE17021 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 AAB94231 Hypothetical protein F16B4.11 [Caenorhabditis elegans] ref|NP_503457.1| F16B4.11 [Caenorhabditis elegans] 0.0
blast CAE62509 Hypothetical protein CBG06614 [Caenorhabditis briggsae] 1.0E-121
blast CAE62509 Hypothetical protein CBG06614 [Caenorhabditis briggsae] 1.0E-120
blast AAM29674 Nuclear hormone receptor family protein 117, isoform a [Caenorhabditis elegans] ref|NP_741511.1| Nuclear Hormone Receptor family member (nhr-117) [Caenorhabditis elegans] 1.0E-116
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.1E-10
Pfam IPR002892 EMBL-EBI Protein of unknown function DUF40 9.0E-16
Sequence
Target Sequence 
>C. ELEGANS:190260_AT
gcaaaatggttggcgtgctccaaaaaaatacagagctttgatgatgacgtcaaaattaaa
attttgagaactgtctggtttaattggggacgcttggagcatatgacagcaacagctaaa
atgaggattcggggaagctgtgggaaagaacaattaatgttctcctctgacacaaaactg
aactttggcaatgtgcacattgatctaagctgcttttctaaatattcattcgaacaaatg
cgctactttttctctccaaatgaagtatactacgatgaagccatttctaaaatggtggag
atgcaacccagtgatattgaattaacttatctcatatgtgcgatttgttttcatattaca
ggcaaacacttcggaggtgatattgaagaagaaatgggccatttacaagatgttttggcc
agtgatctccacgattattattgcaaaaataattttcccatgtatcttttgcgactgaaa
cagttgctaaaaatcaaggacacttttgtgaagctcaggaatattcggctcgag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAAAATGGTTGGCGTGCTCCAAAA 649 317 715 Antisense
GGGGACGCTTGGAGCATATGACAGC 668 497 800 Antisense
ATGTTCTCCTCTGACACAAAACTGA 412 47 871 Antisense
GCACATTGATCTAAGCTGCTTTTCT 625 315 909 Antisense
GAACAAATGCGCTACTTTTTCTCTC 241 353 946 Antisense
GGTGGAGATGCAACCCAGTGATATT 2 499 1008 Antisense
TATTACAGGCAAACACTTCGGAGGT 486 655 1068 Antisense
ATGTTTTGGCCAGTGATCTCCACGA 461 47 1124 Antisense
GATCTCCACGATTATTATTGCAAAA 436 419 1138 Antisense
ATTTTCCCATGTATCTTTTGCGACT 612 13 1166 Antisense
GAAGCTCAGGAATATTCGGCTCGAG 78 343 1224 Antisense
Sequence Source Affymetrix Proprietary Database