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[192189_at] zinc finger protein

Description T05B4.2 /REP_DB=WormBase Gene ID /WP=CE13195 /GEN=nhr-57 /TR=O16425 /GB=AAC69062.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_highest_10_10 > 97      6grp_high1_10_10 > 79      4grp_highest_8_8 > 07      4grp_high_8_8 > 29      6grp_highest_nonorm > 82      6grp_total > 69      4grp_total > 27      6grp_highest_sub > Cu      6grp_cgc > 39      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 582
1 2 3 4 range
A 434.8
(-2.3)
P 		772.3
(1.2)
P 		362.2
(-3)
P 		943.8
(3)
P 		582
B 470.7
(-2.4)
P 		681.2
(0.2)
P 		417.5
(-3)
P 		911.4
(3)
P 		494
C 485.9
(-2.3)
P 		748
(2.4)
P 		449.8
(-3)
P 		779.3
(3)
P 		330
avr 463.8
(-2.3) 		733.8
(1.2) 		409.8
(-3) 		878.2
(3) 		468

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 218
1 2 3 4 5 6 range
A 351.1
(-0.5)
P 		374
(0.2)
P 		263.1
(-3)
P 		385.3
(0.5)
P 		378.1
(0.3)
P 		470.4
(3)
P 		207
B 319.6
(-1.3)
P 		333.9
(-0)
P 		336
(0.2)
P 		301.1
(-3)
P 		366.7
(3)
P 		365
(2.8)
P 		66
C 385.7
(2.4)
P 		260.4
(-2.7)
P 		331.3
(0.2)
P 		252.7
(-3)
P 		335.7
(0.4)
P 		400.2
(3)
P 		148
avr 352.1
(-0.5) 		322.8
(-2.3) 		310.1
(-3) 		313
(-2.8) 		360.2
(-0) 		411.9
(3) 		102
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 120
1 2 3 4 range
A 158.3
(2.2)
P 		167.6
(3)
P 		94.7
(-3)
P 		138.1
(0.6)
P 		73
B 150.1
(0.3)
P 		168.3
(1.4)
P 		96.7
(-3)
P 		194.2
(3)
P 		98
C 160.9
(-0.9)
P 		215
(3)
P 		156.8
(-1.2)
P 		131.4
(-3)
P 		84
avr 156.4
(0.6) 		183.6
(3) 		116.1
(-3) 		154.6
(0.4) 		68

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 98
1 2 3 4 5 6 range
A 64.7
(-2.4)
P 		133
(3)
P 		57.3
(-3)
P 		97.7
(0.2)
P 		114.1
(1.5)
P 		114.5
(1.5)
P 		76
B 111.2
(-0.3)
P 		111.1
(-0.3)
P 		81.6
(-2.8)
P 		79.7
(-3)
P 		149
(3)
P 		136.1
(1.9)
P 		69
C 143
(3)
P 		79.5
(-1.1)
P 		84.3
(-0.8)
P 		50.8
(-3)
P 		108.6
(0.8)
P 		134
(2.4)
P 		92
avr 106.3
(0.6) 		107.9
(0.7) 		74.4
(-3) 		76.1
(-2.8) 		123.9
(2.5) 		128.2
(3) 		54
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192189_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15861
Sequence Type Exemplar sequence
Representative Public ID T05B4.2 NCBI
Target Description T05B4.2 /REP_DB=WormBase Gene ID /WP=CE13195 /GEN=nhr-57 /TR=O16425 /GB=AAC69062.1 /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_071752(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071752 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-57) (nhr-57) mRNA, complete cds. 11/11 None
SNAP00000031069 ENSEMBL cdna:SNAP chromosome:CEL140:V:4131750:4134529:1 11/11 None
GENEFINDER00000031072 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:4131750:4139051:1 9/11 None
T05B4.2 ENSEMBL cdna:known chromosome:CEL140:V:4131738:4134936:1 gene:T05B4.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
AF273804 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:4131749-4134529(+) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-57
Ensembl T05B4.2
Entrez Gene 178813 Entrez gene
SwissProt O16425 EMBL-EBI
WormBase CE13195 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
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
5489 electron transporter activity inferred from electronic annotation QuickGO AmiGO
20037 heme binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC69062 Nuclear hormone receptor family protein 57 [Caenorhabditis elegans] ref|NP_504153.1| Nuclear Hormone Receptor family member (nhr-57) [Caenorhabditis elegans] 0.0
blast AAK17978 nuclear receptor NHR-57 [Caenorhabditis elegans] 0.0
blast CAE65450 Hypothetical protein CBG10415 [Caenorhabditis briggsae] 1.0E-172
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.2E-28
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.1E-24
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.5E-24
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.3E-16
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000031072 3 643-665,672-691,701-723
Sequence
Target Sequence 
>C. ELEGANS:192189_AT
gagggcagttttccacagtttaaggaaatgggcgggtttgagaagaaacacgtttttaaa
tactttttcgtatcatttttgattcttgaaatgggatatcggagttatcaagaaggaact
gacgcaattgttttggcaaatggagattttattgatactatgaatttggatgagttttac
tatgatccggagagtctagaaaaatgcaaacctacagacgcgatgaaaatgtaccgcccg
aactttgaccagatgaaacgcaatgtgttccaacctctctcacatcaaaaactatcgctt
atcgagtttctcgcattggtatccctgtgcacgtggaatgaatcactagatggtcagccg
gattgttactatccgtcttgccgaccagtacgacagagcgtgattgcagacttgaaagca
ttttacgagaaagactcgccagacgtggatccagcttaccggctttccgggcttctgatg
ttactgccagctctggagcgttccgtggaactatttcttcaaacgatggaagtcaaacgc
cttttccgct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGGGCAGTTTTCCACAGTTTAAGG 553 401 541 Antisense
TGAAAATGTACCGCCCGAACTTTGA 274 411 764 Antisense
TGAAACGCAATGTGTTCCAACCTCT 246 573 794 Antisense
CAACCTCTCTCACATCAAAAACTAT 365 187 811 Antisense
ACTATCGCTTATCGAGTTTCTCGCA 20 103 831 Antisense
ATTGGTATCCCTGTGCACGTGGAAT 206 3 855 Antisense
GATGGTCAGCCGGATTGTTACTATC 167 407 889 Antisense
TTGCCGACCAGTACGACAGAGCGTG 684 699 918 Antisense
GAAAGACTCGCCAGACGTGGATCCA 158 359 969 Antisense
CTGATGTTACTGCCAGCTCTGGAGC 132 239 1015 Antisense
ATGGAAGTCAAACGCCTTTTCCGCT 707 51 1066 Antisense
Sequence Source Affymetrix Proprietary Database