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[190004_at] zinc finger protein

Description F16B4.1 /REP_DB=WormBase Gene ID /WP=CE17011 /TR=O61203 /GB=AAB94232.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_highest_10_10 > 26      6grp_high1_10_10 > 51      4grp_highest_8_8 > 29      4grp_high_8_8 > 15      6grp_highest_nonorm > 81      6grp_total > 61      4grp_total > 0      6grp_highest_sub > 03      6grp_cgc > 83      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      6grp_rule_based > S3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 249
1 2 3 4 range
A 209.1
(0.1)
P 		113.2
(-3)
P 		253.9
(1.5)
P 		298.8
(3)
P 		186
B 177.4
(-2.8)
P 		174.3
(-3)
P 		208.5
(-1.1)
P 		283.9
(3)
P 		110
C 233.6
(-2.7)
P 		226
(-3)
P 		289.4
(-0.2)
P 		362.6
(3)
P 		137
avr 206.7
(-1.5) 		171.2
(-3) 		250.6
(0.3) 		315.1
(3) 		144

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 214
1 2 3 4 5 6 range
A 212.7
(-1.3)
P 		261.5
(0.1)
P 		345.4
(2.5)
P 		364.3
(3)
P 		196
(-1.7)
P 		150.7
(-3)
P 		214
B 183.8
(-2.8)
P 		258.7
(2.8)
P 		262
(3)
P 		250.8
(2.2)
P 		229.5
(0.6)
P 		180.7
(-3)
P 		81
C 173
(-3)
P 		265.5
(1.2)
P 		305.2
(3)
P 		286.9
(2.2)
P 		180.1
(-2.7)
P 		192.7
(-2.1)
P 		132
avr 189.8
(-2.3) 		261.9
(1) 		304.2
(3) 		300.7
(2.8) 		201.9
(-1.7) 		174.7
(-3) 		130
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 76
1 2 3 4 range
A 76.1
(3)
P 		24.6
(-3)
P 		66.4
(1.9)
P 		43.7
(-0.8)
P 		52
B 56.6
(1.7)
P 		43
(-3)
P 		48.3
(-1.2)
P 		60.5
(3)
P 		18
C 77.3
(-0.6)
P 		65
(-2.4)
P 		100.9
(3)
P 		61.1
(-3)
P 		40
avr 70
(2.6) 		44.2
(-3) 		71.9
(3) 		55.1
(-0.6) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 57
1 2 3 4 5 6 range
A 39.2
(-2.7)
P 		93
(3)
P 		75.2
(1.1)
P 		92.4
(2.9)
P 		59.1
(-0.6)
P 		36.7
(-3)
P 		56
B 63.9
(-2.9)
P 		86.1
(1.6)
P 		63.6
(-3)
P 		66.4
(-2.4)
P 		93.2
(3)
P 		67.4
(-2.2)
P 		30
C 64.1
(-1.4)
P 		81
(3)
P 		77.7
(2.2)
P 		57.7
(-3)
P 		58.3
(-2.8)
P 		64.5
(-1.2)
P 		23
avr 55.7
(-3) 		86.7
(3) 		72.2
(0.2) 		72.2
(0.2) 		70.2
(-0.2) 		56.2
(-2.9) 		31
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190004_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15883
Sequence Type Exemplar sequence
Representative Public ID F16B4.1 NCBI
Target Description F16B4.1 /REP_DB=WormBase Gene ID /WP=CE17011 /TR=O61203 /GB=AAB94232.1 /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_071054(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071054 NCBI Caenorhabditis elegans F16B4.1 (F16B4.1) mRNA, complete cds. 11/11 None
SNAP00000004025 ENSEMBL cdna:SNAP chromosome:CEL140:V:1609386:1612505:1 11/11 None
GENEFINDER00000004028 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1610851:1612505:1 11/11 None
F16B4.1 ENSEMBL cdna:known chromosome:CEL140:V:1610189:1612505:1 gene:F16B4.1 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:1610188-1612505(+) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-177
Ensembl F16B4.1
Entrez Gene 184557 Entrez gene
SwissProt O61203 EMBL-EBI
WormBase CE17011 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 AAB94232 Hypothetical protein F16B4.1 [Caenorhabditis elegans] ref|NP_503455.1| F16B4.1 [Caenorhabditis elegans] 0.0
blast AAB94232 Hypothetical protein F16B4.1 [Caenorhabditis elegans] ref|NP_503455.1| F16B4.1 [Caenorhabditis elegans] 1.0E-170
blast AAB94232 Hypothetical protein F16B4.1 [Caenorhabditis elegans] ref|NP_503455.1| F16B4.1 [Caenorhabditis elegans] 1.0E-169
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-130
blast CAE62509 Hypothetical protein CBG06614 [Caenorhabditis briggsae] 1.0E-129
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] 5.0E-91
blast AAK68332 Nuclear hormone receptor family protein 117, isoform b [Caenorhabditis elegans] ref|NP_741512.1| Nuclear Hormone Receptor family member (nhr-117) [Caenorhabditis elegans] gb|AAO39207.1| nuclear receptor NHR-117 [Caenorhabditis elegans] 5.0E-91
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.3E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.4E-6
Sequence
Target Sequence 
>C. ELEGANS:190004_AT
aatctggtacacttggggacgtctcgaacggattgccactacggcaaaattgagattaga
gaaaaaatgcgaagaaaagcattttgtgttctccccaatgtttgcactgaatttggatga
aatgtcttttgatgctagctgctggacaactctcccgtttgaagaaatgcaatatttcta
tgttcctagagagctgttctacgaagatgccgtattggaaatgatggaagtgaagccaaa
tgacgtggagacgacatttatcatttgcagtatttgctttcacttgactggcaaacgatt
cggtggcgaaatccaagaaaagatggaccacttacaagacgttttatcaaacgaccttca
cgagtattacctgaaaaacaaaaactccatgtaccttcggaggctaaaacagttaatgag
aatcaaagagaattttctgaagctgagaagtgctcgaatggataaatatgaaattggcgg
atttttcaactcattcaacccacgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATCTGGTACACTTGGGGACGTCTC 198 167 738 Antisense
CGTCTCGAACGGATTGCCACTACGG 77 241 757 Antisense
GAAAAGCATTTTGTGTTCTCCCCAA 245 355 811 Antisense
TTCTCCCCAATGTTTGCACTGAATT 250 693 826 Antisense
TGATGCTAGCTGCTGGACAACTCTC 230 567 867 Antisense
GGACAACTCTCCCGTTTGAAGAAAT 101 527 881 Antisense
GAGAGCTGTTCTACGAAGATGCCGT 9 395 926 Antisense
AGTATTTGCTTTCACTTGACTGGCA 223 63 1006 Antisense
AAACGACCTTCACGAGTATTACCTG 702 121 1086 Antisense
AAAACTCCATGTACCTTCGGAGGCT 426 129 1118 Antisense
TTTTTCAACTCATTCAACCCACGAA 228 675 1219 Antisense
Sequence Source Affymetrix Proprietary Database