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[192920_s_at] nuclear hormone receptor

Description F54D1.4 /REP_DB=WormBase Gene ID /WP=CE28032 /GEN=nhr-7 /TR=SW:Q20765 /GB=CAB00862.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_highest_10_10 > 31      6grp_high1_10_10 > 03      4grp_highest_8_8 > 59      4grp_high_8_8 > 25      6grp_highest_nonorm > 70      6grp_total > 24      4grp_total > 47      6grp_highest_sub > De      6grp_cgc > 31      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 625
1 2 3 4 range
A 747.3
(3)
P 		303.8
(-1.9)
P 		204.9
(-3)
P 		257.1
(-2.4)
P 		542
B 802.5
(3)
P 		335.1
(-1.8)
P 		219.9
(-3)
P 		350.7
(-1.7)
P 		583
C 817.7
(3)
P 		249.5
(-2.5)
P 		192.6
(-3)
P 		322.5
(-1.8)
P 		625
avr 789.2
(3) 		296.1
(-2.1) 		205.8
(-3) 		310.1
(-1.9) 		583

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 396
1 2 3 4 5 6 range
A 506.1
(3)
P 		457.5
(2.2)
P 		334.8
(0.2)
P 		207.8
(-1.9)
P 		141.3
(-3)
P 		165
(-2.6)
P 		365
B 517.9
(3)
P 		362.3
(0.6)
P 		245.6
(-1.1)
P 		210.3
(-1.7)
P 		129
(-2.9)
P 		122.4
(-3)
P 		396
C 435
(3)
P 		422.9
(2.8)
P 		335
(1)
P 		239.6
(-0.9)
P 		185.6
(-2)
P 		137.5
(-3)
P 		298
avr 486.3
(3) 		414.2
(1.7) 		305.1
(-0.2) 		219.2
(-1.6) 		152
(-2.8) 		141.6
(-3) 		345
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 235
1 2 3 4 range
A 272.1
(3)
P 		65.9
(-2.3)
P 		53.6
(-2.6)
P 		37.6
(-3)
P 		235
B 255.9
(3)
P 		82.8
(-2.1)
P 		50.9
(-3)
P 		74.7
(-2.3)
P 		205
C 270.7
(3)
P 		71.7
(-2.5)
P 		67.1
(-2.6)
P 		54.4
(-3)
P 		216
avr 266.2
(3) 		73.5
(-2.5) 		57.2
(-3) 		55.6
(-3) 		211

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 140
1 2 3 4 5 6 range
A 93.3
(-0.4)
P 		162.7
(3)
P 		72.9
(-1.4)
P 		52.7
(-2.4)
P 		42.7
(-2.9)
P 		40.2
(-3)
P 		123
B 180.2
(3)
P 		120.6
(0.3)
P 		59.6
(-2.4)
P 		55.7
(-2.5)
P 		52.4
(-2.7)
P 		45.6
(-3)
P 		135
C 161.2
(3)
P 		129
(1.3)
P 		85.3
(-1)
P 		48.2
(-2.9)
P 		60.1
(-2.3)
P 		46
(-3)
P 		115
avr 144.9
(3) 		137.4
(2.6) 		72.6
(-1.3) 		52.2
(-2.5) 		51.7
(-2.5) 		43.9
(-3) 		101
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192920_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9100
Sequence Type Exemplar sequence
Representative Public ID F54D1.4 NCBI
Target Description F54D1.4 /REP_DB=WormBase Gene ID /WP=CE28032 /GEN=nhr-7 /TR=SW:Q20765 /GB=CAB00862.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
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_069716(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069716 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-7) (nhr-7) mRNA, complete cds. 11/11 None
SNAP00000005952 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11266266:11268253:-1 11/11 None
GENEFINDER00000005961 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11266215:11268748:-1 11/11 None
F54D1.4 ENSEMBL cdna:known chromosome:CEL140:IV:11266238:11269862:-1 gene:F54D1.4 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
chrIV:11266271-11268754(-) 99.57 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-7
Ensembl F54D1.4
Entrez Gene 178035 Entrez gene
SwissProt Q20765 EMBL-EBI
WormBase CE20866 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
Protein Similarities
Method ID Description E-Value
blast CAB00862 Hypothetical protein F54D1.4 [Caenorhabditis elegans] ref|NP_502117.2| Nuclear Hormone Receptor family member (nhr-7) [Caenorhabditis elegans] sp|Q20765|NHR7_CAEEL Nuclear hormone receptor family member nhr-7 gb|AAD03683.1| nuclear receptor NHR-7 [Caenorhabditis elegans] 0.0
blast CAE62036 Hypothetical protein CBG06052 [Caenorhabditis briggsae] 0.0
blast AAV34794 Nuclear hormone receptor family protein 31, isoform c [Caenorhabditis elegans] ref|NP_001021330.1| Nuclear Hormone Receptor family member (nhr-31) [Caenorhabditis elegans] 9.0E-27
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.6E-37
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 8.5E-14
Sequence
Target Sequence 
>C. ELEGANS:192920_S_AT
tgaatcccggaatctggcatctcgaattcgacaatctcagcaaccattttttgtccggga
ttctgatcccaagatcccattccacaaaattctcaccgacataataaatccagaagtatc
agatcttctgctgacaactgctaactgtcgtaaattatcaactcaaatgggatcatcact
ttcatcagttccaccagttcctccaccatctgatacagttcctttattccatttctcacc
tccatcattgtctccttgtcaaatcagtgcacctccaccgccacaacaacagtacacaga
ttattctcaaatgccgtctacctcttcttatccagcaaattcaagtcctttccaatctcc
ataccgcccgaattcactctcatcatttccgaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGAATCCCGGAATCTGGCATCTCGA 666 573 1041 Antisense
GAATTCGACAATCTCAGCAACCATT 43 323 1064 Antisense
GCAACCATTTTTTGTCCGGGATTCT 516 315 1080 Antisense
GGATTCTGATCCCAAGATCCCATTC 476 509 1098 Antisense
GATCTTCTGCTGACAACTGCTAACT 388 419 1162 Antisense
TGGGATCATCACTTTCATCAGTTCC 132 555 1208 Antisense
GATACAGTTCCTTTATTCCATTTCT 19 423 1252 Antisense
TCTCCTTGTCAAATCAGTGCACCTC 54 611 1291 Antisense
CTACCTCTTCTTATCCAGCAAATTC 466 225 1358 Antisense
AAATTCAAGTCCTTTCCAATCTCCA 645 113 1377 Antisense
CGAATTCACTCTCATCATTTCCGAA 402 253 1409 Antisense
Sequence Source Affymetrix Proprietary Database