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[193542_at] Zinc finger, C4 type (two domains)

Description T06C12.7 /REP_DB=WormBase Gene ID /WP=CE16357 /GEN=nhr-84 /TR=O45756 /GB=CAB03299.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_highest_10_10 > 60      6grp_high1_10_10 > 07      4grp_high_8_8 > 16      6grp_highest_nonorm > 80      6grp_total > 07      4grp_total > 39      6grp_highest_sub > De      6grp_cgc > 13      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 207
1 2 3 4 range
A 244.4
(3)
P
189.2
(-0.3)
A
207.8
(0.8)
P
143.3
(-3)
P
101
B 307.7
(3)
P
172.4
(-1.9)
P
141.2
(-3)
P
231
(0.2)
P
167
C 307.8
(3)
P
156.2
(-1.4)
P
101.2
(-3)
P
241.4
(1.1)
P
207
avr 286.6
(3)
172.6
(-2)
150.1
(-3)
205.2
(-0.6)
137

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 184
1 2 3 4 5 6 range
A 293.7
(3)
P
224.1
(0.5)
P
154.3
(-2.1)
P
162.9
(-1.8)
P
128.6
(-3)
P
214.3
(0.1)
P
165
B 228.2
(2.7)
P
231.9
(3)
P
214.7
(1.8)
P
172.8
(-1.1)
P
195.6
(0.5)
P
145.4
(-3)
P
87
C 312.5
(3)
P
213.7
(-0.7)
P
184.6
(-1.8)
P
263.1
(1.2)
P
151.8
(-3)
P
183.3
(-1.8)
P
161
avr 278.1
(3)
223.2
(0.2)
184.5
(-1.7)
199.6
(-0.9)
158.7
(-3)
181
(-1.9)
119
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 81
1 2 3 4 range
A 89
(3)
P
41.1
(-1.2)
A
54.3
(-0.1)
P
21
(-3)
P
68
B 98.1
(3)
P
42.6
(-2.1)
P
32.7
(-3)
P
49.2
(-1.5)
P
65
C 101.9
(3)
P
44.9
(-2.1)
P
35.3
(-3)
P
40.7
(-2.5)
P
67
avr 96.3
(3)
42.9
(-2.4)
40.8
(-2.6)
37
(-3)
59

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 82
1 2 3 4 5 6 range
A 54.1
(-0.3)
P
79.7
(3)
P
33.6
(-3)
P
41.3
(-2)
P
38.8
(-2.3)
P
52.2
(-0.6)
P
46
B 79.4
(3)
P
77.2
(2.6)
P
52.1
(-1.9)
P
45.8
(-3)
P
79.5
(3)
P
54.2
(-1.5)
P
34
C 115.8
(3)
P
65.2
(-1.4)
P
47
(-3)
P
52.9
(-2.5)
P
49.1
(-2.8)
P
61.4
(-1.7)
P
69
avr 83.1
(3)
74
(1.6)
44.2
(-3)
46.7
(-2.6)
55.8
(-1.2)
55.9
(-1.2)
39
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193542_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13946
Sequence Type Exemplar sequence
Representative Public ID T06C12.7 NCBI
Target Description T06C12.7 /REP_DB=WormBase Gene ID /WP=CE16357 /GEN=nhr-84 /TR=O45756 /GB=CAB03299.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
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_074567(11)
Transcript Assignments
Representative
Transcript
Description Matching Probes Related Probesets by Grade
NM_074567 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-84) (nhr-84) mRNA, complete cds. 11/11 None
SNAP00000035466 ENSEMBL cdna:SNAP chromosome:CEL140:V:15879436:15882151:-1 11/11 None
GENEFINDER00000035483 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15879312:15882151:-1 11/11 None
T06C12.7 ENSEMBL cdna:known chromosome:CEL140:V:15879425:15882151:-1 gene:T06C12.7 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:15879435-15882151(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-84
Ensembl T06C12.7
Entrez Gene 191731 Entrez gene
SwissProt O45756 EMBL-EBI
WormBase CE16357 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 CAB03299 Hypothetical protein T06C12.7 [Caenorhabditis elegans] ref|NP_506968.1| Nuclear Hormone Receptor family member (nhr-84) [Caenorhabditis elegans] 0.0
blast CAE74981 Hypothetical protein CBG22874 [Caenorhabditis briggsae] 0.0
blast AAM45373 Hypothetical protein F44E7.8 [Caenorhabditis elegans] ref|NP_504518.3| F44E7.8 [Caenorhabditis elegans] 8.0E-72
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 6.5E-19
Sequence
Target Sequence
>C. ELEGANS:193542_AT
tacgaatcgccaattggctcctccattctgaacatttccgaatgcttccacttgaggaga
aaatgatgattttcaagaaaatctgggctcgatggaggaagtttgagaaatggctgatat
cagttgacacatttggtcacaaagtttataaggagaacgtgattgtatgcacaaattata
acgcggcgaatctcaacaaggtgcatattgattattcaaatattactgatcgatcgaatg
aggaaatgtcacaattatttgggagacagctatggagaatgcaaaaagaagttgcaaagc
cattggctgagctcactccgtcaacaattgagatgacatatatgttatgtcagctggtat
ggaatagtttagacgtcgaactcaacaactactcagcggacatcggtgacaaatttctcg
cagaaatctctgaaaacctacacgaatactacatgcatcagaatgttcaaaactacgcat
ggcgcctgcaaaagctca


BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position
Strandedness
TACGAATCGCCAATTGGCTCCTCCA 240 649 647 Antisense
CTCCTCCATTCTGAACATTTCCGAA 128 235 664 Antisense
ATTTCCGAATGCTTCCACTTGAGGA 486 17 680 Antisense
TAACGCGGCGAATCTCAACAAGGTG 186 639 825 Antisense
CAAAGCCATTGGCTGAGCTCACTCC 355 191 941 Antisense
GAGCTCACTCCGTCAACAATTGAGA 53 389 955 Antisense
AGACGTCGAACTCAACAACTACTCA 153 71 1017 Antisense
AACAACTACTCAGCGGACATCGGTG 488 135 1030 Antisense
GACATCGGTGACAAATTTCTCGCAG 134 369 1045 Antisense
AACCTACACGAATACTACATGCATC 240 145 1081 Antisense
TACGCATGGCGCCTGCAAAAGCTCA 436 649 1120 Antisense
Sequence Source Affymetrix Proprietary Database