[Home] | [Total List]

[192282_at]

Description R11G11.2 /REP_DB=WormBase Gene ID /WP=CE12742 /GEN=nhr-58 /TR=O16960 /GB=AAC69077.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_highest_10_10 > 04      6grp_high1_10_10 > 41      4grp_high_8_8 > 38      6grp_highest_nonorm > 90      6grp_total > 42      4grp_total > 41      6grp_cgc > 81      6grp_high1_sub > 03      6grp_cgc_sub > 03      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 131
1 2 3 4 range
A 103.7
(-3)
P 		194.9
(3)
P 		179.3
(2)
P 		163.4
(0.9)
P 		91
B 102.8
(-3)
P 		200.1
(1.6)
P 		228.6
(3)
P 		175.4
(0.5)
P 		126
C 176.4
(-2.7)
A 		201
(-0.3)
P 		234
(3)
P 		173.8
(-3)
P 		60
avr 127.6
(-3) 		198.7
(1.9) 		214
(3) 		170.9
(0) 		86

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 124
1 2 3 4 5 6 range
A 102.3
(-3)
P 		226.6
(3)
P 		126.9
(-1.8)
P 		182.6
(0.9)
P 		151.2
(-0.6)
P 		111
(-2.6)
P 		124
B 169.6
(2.3)
P 		105.1
(-3)
P 		178.6
(3)
P 		116.8
(-2)
P 		115
(-2.2)
P 		125.3
(-1.4)
P 		74
C 174.7
(-0.1)
P 		136.5
(-3)
P 		214.4
(3)
P 		157
(-1.4)
P 		171.7
(-0.3)
P 		143
(-2.5)
P 		78
avr 148.9
(-0.1) 		156.1
(0.8) 		173.3
(3) 		152.1
(0.3) 		146
(-0.5) 		126.4
(-3) 		47
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 58
1 2 3 4 range
A 37.7
(0.6)
P 		42.3
(1.8)
P 		46.9
(3)
P 		23.9
(-3)
P 		23
B 32.8
(-3)
P 		49.4
(1.9)
P 		53
(3)
P 		37.4
(-1.6)
P 		20
C 58.4
(0.3)
A 		57.8
(0.3)
P 		81.6
(3)
P 		29.3
(-3)
P 		52
avr 43
(-0.5) 		49.8
(0.9) 		60.5
(3) 		30.2
(-3) 		30

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 62
1 2 3 4 5 6 range
A 18.9
(-3)
P 		80.6
(3)
P 		27.6
(-2.2)
P 		46.3
(-0.3)
P 		45.6
(-0.4)
P 		27
(-2.2)
P 		62
B 59
(3)
P 		35
(-2.1)
P 		43.4
(-0.3)
P 		30.9
(-3)
P 		46.7
(0.4)
P 		46.7
(0.4)
P 		28
C 64.7
(3)
P 		41.7
(-1.2)
P 		54.6
(1.2)
P 		31.6
(-3)
P 		55.5
(1.3)
P 		47.9
(-0)
P 		33
avr 47.5
(1.2) 		52.4
(3) 		41.9
(-0.9) 		36.3
(-3) 		49.3
(1.8) 		40.5
(-1.4) 		16
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192282_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15440
Sequence Type Exemplar sequence
Representative Public ID R11G11.2 NCBI
Target Description R11G11.2 /REP_DB=WormBase Gene ID /WP=CE12742 /GEN=nhr-58 /TR=O16960 /GB=AAC69077.1 /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,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_001028909(11), NM_070835(11), AF273806(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028909 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-58) (nhr-58) mRNA, complete cds. 11/11 None
NM_070835 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-58) (nhr-58) mRNA, complete cds. 11/11 None
AF273806 NCBI Caenorhabditis elegans clone yk308e2 nuclear receptor NHR-58 mRNA, partial cds. 11/11 None
SNAP00000021492 ENSEMBL cdna:SNAP chromosome:CEL140:V:532462:535843:1 11/11 None
GENEFINDER00000021497 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:527731:534073:1 11/11 None
R11G11.2b ENSEMBL cdna:known chromosome:CEL140:V:532118:533869:1 gene:R11G11.2 11/11 None
R11G11.2a ENSEMBL cdna:known chromosome:CEL140:V:532184:533891:1 gene:R11G11.2 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:532191-533869(+) 99.92 100.0
Public Domain and Genome References
Ensembl R11G11.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAG15155 nuclear receptor NHR-58 [Caenorhabditis elegans] 0.0
blast NP_001024080 Nuclear Hormone Receptor family member (nhr-58) [Caenorhabditis elegans] gb|AAO26008.1| Nuclear hormone receptor family protein 58, isoform b [Caenorhabditis elegans] 0.0
blast NP_503236 Nuclear Hormone Receptor family member (nhr-58) [Caenorhabditis elegans] gb|AAC69077.1| Nuclear hormone receptor family protein 58, isoform a [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.0E-8
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.0E-8
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 6.7E-4
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.4E-7
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.0E-8
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000021497 3 24-46,56-73,93-112
Sequence
Target Sequence 
>C. ELEGANS:192282_AT
acgtggctcaccaactttgacgagtttcaaaaattggagcatcctgtgaaaatgaagatc
cttttcgcgatttggcacatgtgggggaggatggacaagctagcgtgtaccgcgttggct
agacgaagacagcagctctcagcaaagtcagaaatcgcgcagagtaatgggctctttttg
gatgtggacaccctggcgttggatgtttcctggatttctgaattcaagctggaagaggtg
gaattttttatcgacggtttccgtaactgggatctcatggagctcgtgcaagtgttcgtc
gaactagaccccacacccatcgagcttaactacatgcttgcgcaaatgagcttctactac
gctggcaaccgatttcaaggagaaatcctcgagattatggaccgattccaacagatattg
tcggatgatctgcacaagtattatgtgaatgagcggcacactagcaactactcggggaga
ctgagccggctgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACGTGGCTCACCAACTTTGACGAGT 306 95 574 Antisense
GAAGATCCTTTTCGCGATTTGGCAC 227 339 627 Antisense
CAAGCTAGCGTGTACCGCGTTGGCT 710 185 669 Antisense
GGCTCTTTTTGGATGTGGACACCCT 259 537 743 Antisense
CCCTGGCGTTGGATGTTTCCTGGAT 497 257 764 Antisense
GACGGTTTCCGTAACTGGGATCTCA 662 331 826 Antisense
GAGCTCGTGCAAGTGTTCGTCGAAC 490 387 853 Antisense
CACACCCATCGAGCTTAACTACATG 391 195 885 Antisense
TCTACTACGCTGGCAACCGATTTCA 136 615 926 Antisense
GAATGAGCGGCACACTAGCAACTAC 482 331 1020 Antisense
TACTCGGGGAGACTGAGCCGGCTGC 78 647 1042 Antisense
Sequence Source Affymetrix Proprietary Database