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[189948_at] zinc finger protein

Description T01G6.2 /REP_DB=WormBase Gene ID /WP=CE12992 /TR=O16968 /GB=AAG24177.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_highest_10_10 > 83      6grp_high1_10_10 > 47      4grp_highest_8_8 > 30      4grp_high_8_8 > 04      6grp_highest_nonorm > 82      6grp_total > 48      4grp_total > 04      6grp_highest_sub > Cu      6grp_cgc > 17      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 478
1 2 3 4 range
A 437.9
(-1.7)
P 		339.1
(-3)
P 		366
(-2.6)
P 		789.9
(3)
P 		451
B 495.6
(-0.5)
P 		311.7
(-3)
P 		393.6
(-1.9)
P 		752.9
(3)
P 		441
C 453
(-1.7)
P 		375.7
(-2.8)
P 		359.9
(-3)
P 		782.1
(3)
P 		422
avr 462.2
(-1.3) 		342.2
(-3) 		373.2
(-2.6) 		775
(3) 		433

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 329
1 2 3 4 5 6 range
A 517.9
(3)
P 		336.2
(-1.6)
P 		345.8
(-1.3)
P 		290.6
(-2.7)
P 		280.2
(-3)
P 		468.4
(1.8)
P 		238
B 495.4
(3)
P 		356.7
(-0.9)
P 		281.8
(-3)
P 		335.9
(-1.5)
P 		349.8
(-1.1)
P 		487.4
(2.8)
P 		214
C 490
(1.3)
P 		317.1
(-1.8)
P 		292
(-2.3)
P 		314.9
(-1.9)
P 		252.4
(-3)
P 		581.7
(3)
P 		329
avr 501.1
(2.7) 		336.7
(-1.8) 		306.5
(-2.7) 		313.8
(-2.5) 		294.1
(-3) 		512.5
(3) 		218
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 87
1 2 3 4 range
A 159.4
(3)
P 		73.6
(-3)
P 		95.7
(-1.5)
P 		115.6
(-0.1)
P 		86
B 158.1
(2.8)
P 		77
(-3)
P 		91.2
(-2)
P 		160.4
(3)
P 		83
C 149.9
(3)
P 		108
(-3)
P 		125.4
(-0.5)
P 		131.9
(0.4)
P 		42
avr 155.8
(3) 		86.2
(-3) 		104.1
(-1.5) 		136
(1.3) 		70

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 131
1 2 3 4 5 6 range
A 95.5
(-0.2)
P 		119.6
(3)
P 		75.3
(-2.8)
P 		73.7
(-3)
P 		84.6
(-1.6)
P 		114.1
(2.3)
P 		46
B 172.4
(2.5)
P 		118.7
(-0.3)
P 		68.4
(-3)
P 		89
(-1.9)
P 		142.1
(0.9)
P 		181.7
(3)
P 		113
C 181.6
(2.4)
P 		96.8
(-1.5)
P 		74.3
(-2.5)
P 		63.3
(-3)
P 		81.7
(-2.2)
P 		194.7
(3)
P 		131
avr 149.8
(2.1) 		111.7
(-0.4) 		72.7
(-3) 		75.3
(-2.8) 		102.8
(-1) 		163.5
(3) 		91
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189948_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15561
Sequence Type Exemplar sequence
Representative Public ID T01G6.2 NCBI
Target Description T01G6.2 /REP_DB=WormBase Gene ID /WP=CE12992 /TR=O16968 /GB=AAG24177.1 /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_070820(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070820 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-131) (nhr-131) mRNA, complete cds. 11/11 None
SNAP00000004002 ENSEMBL cdna:SNAP chromosome:CEL140:V:495604:497040:1 11/11 None
GENEFINDER00000004008 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:494463:497040:1 11/11 None
T01G6.2 ENSEMBL cdna:known chromosome:CEL140:V:493800:497040:1 gene:T01G6.2 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:494468-497040(+) 92.2 92.2
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-131
Ensembl T01G6.2
Entrez Gene 187962 Entrez gene
SwissProt O16968 EMBL-EBI
WormBase CE12992 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 AAG24177 Nuclear hormone receptor family protein 131 [Caenorhabditis elegans] ref|NP_503221.1| Nuclear Hormone Receptor family member (nhr-131) [Caenorhabditis elegans] 0.0
blast AAG24177 Nuclear hormone receptor family protein 131 [Caenorhabditis elegans] ref|NP_503221.1| Nuclear Hormone Receptor family member (nhr-131) [Caenorhabditis elegans] 1.0E-153
blast CAE62319 Hypothetical protein CBG06385 [Caenorhabditis briggsae] 1.0E-145
blast CAE71059 Hypothetical protein CBG17901 [Caenorhabditis briggsae] 1.0E-119
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 9.8E-8
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 9.8E-8
Sequence
Target Sequence 
>C. ELEGANS:189948_AT
aatggctgacctatttcgacgaatttcagcaactggaccaagatgtaaaaagaaaaatcc
tattcggagtttggcatgtttggggacggctcgacaagctgatgggaactgccctgttcc
ggatcaaaaataaagaggctagcctgtccgacagagtggttggaaatggaattgtaactg
atatgaattgtgtggtggccgagactaaatggatgagccggctaccagtacagcagttga
gatattttattgacggaattcgtgcctgggacctatttccattgattgatgagttgcaag
ctctagacataacagaaaccgagctctcattcatgctcgcgcagctttgcttccaatacg
ccgctacacgatttggagggaaaatcgctgaagtcatggaaaaattcatggatattttat
ccaataacttgcatgactactacattcaagaaaagatgatgccgagatactcaggacggc
tgacaaaattgttgaaaattaacaccgcgattttggaaaatattagaaactaccgaactc
gtgcagatattgcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AATGGCTGACCTATTTCGACGAATT 91 161 698 Antisense
AGTTTGGCATGTTTGGGGACGGCTC 664 61 765 Antisense
GGACGGCTCGACAAGCTGATGGGAA 56 525 781 Antisense
TGATGGGAACTGCCCTGTTCCGGAT 51 567 797 Antisense
GAGGCTAGCCTGTCCGACAGAGTGG 92 405 832 Antisense
ATGGATGAGCCGGCTACCAGTACAG 362 51 906 Antisense
ATTGACGGAATTCGTGCCTGGGACC 691 1 946 Antisense
GCCTGGGACCTATTTCCATTGATTG 558 281 961 Antisense
CAGAAACCGAGCTCTCATTCATGCT 488 205 1010 Antisense
TACGCCGCTACACGATTTGGAGGGA 259 649 1054 Antisense
CTACCGAACTCGTGCAGATATTGCC 561 225 1227 Antisense
Sequence Source Affymetrix Proprietary Database