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[190798_at] nuclear hormone receptor

Description R07B7.13 /REP_DB=WormBase Gene ID /WP=CE06275 /TR=Q21803 /GB=CAB00122.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_high1_10_10 > 06      4grp_highest_8_8 > 46      4grp_high_8_8 > 10      6grp_total > 07      4grp_total > 14      6grp_cgc > 11      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 158
1 2 3 4 range
A 178.4
(0.5)
P 		91.8
(-2.9)
P 		88.9
(-3)
P 		241.3
(3)
P 		152
B 193.9
(2.9)
P 		145.3
(-0.4)
P 		106.1
(-3)
P 		195.8
(3)
P 		90
C 235.6
(2.6)
P 		114.4
(-2.3)
P 		97.6
(-3)
P 		246.4
(3)
P 		149
avr 202.6
(1.8) 		117.2
(-2.1) 		97.5
(-3) 		227.8
(3) 		130

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 180
1 2 3 4 5 6 range
A 252.7
(3)
P 		81.1
(-2.9)
P 		159.4
(-0.2)
P 		107
(-2)
P 		77.5
(-3)
P 		108.8
(-1.9)
M 		175
B 252.2
(3)
P 		105.2
(-1.9)
P 		170.4
(0.3)
P 		90.5
(-2.4)
P 		77.6
(-2.8)
P 		73
(-3)
P 		179
C 139.2
(3)
P 		130.7
(2.2)
P 		77.2
(-2.6)
P 		92.7
(-1.2)
P 		73
(-3)
P 		99.2
(-0.6)
P 		66
avr 214.7
(3) 		105.7
(-1.7) 		135.7
(-0.4) 		96.7
(-2.1) 		76
(-3) 		93.7
(-2.2) 		139
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 58
1 2 3 4 range
A 65
(3)
P 		19.9
(-3)
P 		23.2
(-2.6)
P 		35.3
(-1)
P 		45
B 61.8
(3)
P 		35.9
(-1.2)
P 		24.6
(-3)
P 		41.7
(-0.2)
P 		37
C 78
(3)
P 		32.9
(-3)
P 		34
(-2.9)
P 		41.5
(-1.9)
P 		45
avr 68.3
(3) 		29.6
(-2.7) 		27.3
(-3) 		39.5
(-1.2) 		41

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 69
1 2 3 4 5 6 range
A 46.6
(3)
P 		28.8
(-1.6)
P 		34.7
(-0.1)
P 		27.1
(-2)
P 		23.4
(-3)
P 		26.5
(-2.2)
M 		23
B 87.7
(3)
P 		35
(-2)
P 		41.4
(-1.4)
P 		24
(-3)
P 		31.5
(-2.3)
P 		27.2
(-2.7)
P 		64
C 51.6
(3)
P 		39.9
(0.9)
P 		19.7
(-2.8)
P 		18.6
(-3)
P 		23.6
(-2.1)
P 		33.2
(-0.3)
P 		33
avr 62
(3) 		34.6
(-1.2) 		31.9
(-1.7) 		23.2
(-3) 		26.2
(-2.5) 		29
(-2.1) 		39
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190798_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.13103
Sequence Type Exemplar sequence
Representative Public ID R07B7.13 NCBI
Target Description R07B7.13 /REP_DB=WormBase Gene ID /WP=CE06275 /TR=Q21803 /GB=CAB00122.1 /SUBMIT=HINXTON /CHR=5 /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_073632(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073632 NCBI Caenorhabditis elegans R07B7.13 (R07B7.13) mRNA, complete cds. 11/11 None
GENEFINDER00000027109 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12094652:12098483:1 11/11 None
R07B7.13 ENSEMBL cdna:known chromosome:CEL140:V:12094652:12096310:1 gene:R07B7.13 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000027094 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:12094651-12096310(+) 99.19 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol nhr-206
Ensembl R07B7.13
Entrez Gene 187660 Entrez gene
SwissProt Q21803 EMBL-EBI
WormBase CE06275 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1605544_AT similar to Mineralocorticoid receptor (MR) cfa
CANINE_2:CFAAFFX.12548.1.S1_AT similar to Mineralocorticoid receptor (MR) cfa
CANINE_2:CFAAFFX.12548.1.S1_S_AT similar to Mineralocorticoid receptor (MR) cfa
HG-U133_PLUS_2:205259_AT nuclear receptor subfamily 3, group C, member 2 hs
HG-FOCUS:205259_AT nuclear receptor subfamily 3, group C, member 2 hs
HG-U133A_2:205259_AT nuclear receptor subfamily 3, group C, member 2 hs
HG-U133A:205259_AT nuclear receptor subfamily 3, group C, member 2 hs
HU35KSUBC:RC_AA151766_S_AT nuclear receptor subfamily 3, group C, member 2 hs
HU35KSUBD:RC_N91919_S_AT nuclear receptor subfamily 3, group C, member 2 hs
HUGENEFL:M16801_AT nuclear receptor subfamily 3, group C, member 2 hs
U133_X3P:G4505198_3P_AT nuclear receptor subfamily 3, group C, member 2 hs
HG-U95AV2:33249_AT nuclear receptor subfamily 3, group C, member 2 hs
U133_X3P:HS2.375660.1.S1_3P_AT Nuclear receptor subfamily 3, group C, member 2 hs
HG-U133_PLUS_2:1564236_AT Nuclear receptor subfamily 3, group C, member 2 hs
HG-U133_PLUS_2:234142_AT Nuclear receptor subfamily 3, group C, member 2 hs
HG-U133B:234142_AT Nuclear receptor subfamily 3, group C, member 2 hs
HG-U133_PLUS_2:239673_AT Nuclear receptor subfamily 3, group C, member 2 hs
HG-U133B:239673_AT Nuclear receptor subfamily 3, group C, member 2 hs
HG-U95D:87470_AT Nuclear receptor subfamily 3, group C, member 2 hs
HU35KSUBC:RC_N22814_AT Nuclear receptor subfamily 3, group C, member 2 hs
U133_X3P:HS.163924.0.A1_3P_AT Nuclear receptor subfamily 3, group C, member 2 hs
MOUSE430_2:1440306_AT PREDICTED: nuclear receptor subfamily 3, group C, member 2 [Mus musculus], mRNA sequence mm
MOE430B:1440306_AT PREDICTED: nuclear receptor subfamily 3, group C, member 2 [Mus musculus], mRNA sequence mm
MG-U74BV2:105490_AT PREDICTED: nuclear receptor subfamily 3, group C, member 2 [Mus musculus], mRNA sequence mm
MG-U74CV2:134314_AT PREDICTED: nuclear receptor subfamily 3, group C, member 2 [Mus musculus], mRNA sequence mm
MG-U74BV2:105683_AT PREDICTED: nuclear receptor subfamily 3, group C, member 2 [Mus musculus], mRNA sequence mm
MG-U74CV2:133301_AT PREDICTED: nuclear receptor subfamily 3, group C, member 2 [Mus musculus], mRNA sequence mm
MOE430B:1435991_AT PREDICTED: nuclear receptor subfamily 3, group C, member 2 [Mus musculus], mRNA sequence mm
MOUSE430_2:1435991_AT PREDICTED: nuclear receptor subfamily 3, group C, member 2 [Mus musculus], mRNA sequence mm
MOE430B:1442533_AT PREDICTED: nuclear receptor subfamily 3, group C, member 2 [Mus musculus], mRNA sequence mm
MOUSE430_2:1442533_AT PREDICTED: nuclear receptor subfamily 3, group C, member 2 [Mus musculus], mRNA sequence mm
MOE430B:1445092_AT PREDICTED: nuclear receptor subfamily 3, group C, member 2 [Mus musculus], mRNA sequence mm
MOUSE430_2:1445092_AT PREDICTED: nuclear receptor subfamily 3, group C, member 2 [Mus musculus], mRNA sequence mm
MU19KSUBA:TC18003_AT PREDICTED: nuclear receptor subfamily 3, group C, member 2 [Mus musculus], mRNA sequence mm
MU19KSUBA:TC18003_G_AT PREDICTED: nuclear receptor subfamily 3, group C, member 2 [Mus musculus], mRNA sequence mm
RG-U34A:M36074_AT nuclear receptor subfamily 3, group C, member 2 rn
RG-U34A:M36074_G_AT nuclear receptor subfamily 3, group C, member 2 rn
RG-U34C:RC_AI177132_I_AT nuclear receptor subfamily 3, group C, member 2 rn
RAE230A:1368476_AT nuclear receptor subfamily 3, group C, member 2 rn
RAT230_2:1368476_AT nuclear receptor subfamily 3, group C, member 2 rn
RAE230B:1393350_AT Nuclear receptor subfamily 3, group C, member 2 rn
RAT230_2:1393350_AT Nuclear receptor subfamily 3, group C, member 2 rn
RG-U34B:RC_AA997894_AT Nuclear receptor subfamily 3, group C, member 2 rn
RG-U34A:RC_AI235978_AT Nuclear receptor subfamily 3, group C, member 2 rn
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
3677 DNA binding inferred from electronic annotation QuickGO AmiGO
3700 transcription factor activity inferred from electronic annotation QuickGO AmiGO
3707 steroid hormone receptor activity inferred from electronic annotation QuickGO AmiGO
4879 ligand-dependent nuclear receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB00122 Hypothetical protein R07B7.13 [Caenorhabditis elegans] ref|NP_506033.1| R07B7.13 [Caenorhabditis elegans] 0.0
blast CAB00124 Hypothetical protein R07B7.15 [Caenorhabditis elegans] ref|NP_506034.2| R07B7.15 [Caenorhabditis elegans] 0.0
blast CAB00124 Hypothetical protein R07B7.15 [Caenorhabditis elegans] ref|NP_506034.2| R07B7.15 [Caenorhabditis elegans] 1.0E-138
blast CAB00123 Hypothetical protein R07B7.14 [Caenorhabditis elegans] ref|NP_506035.1| R07B7.14 [Caenorhabditis elegans] 1.0E-108
blast CAB00123 Hypothetical protein R07B7.14 [Caenorhabditis elegans] ref|NP_506035.1| R07B7.14 [Caenorhabditis elegans] 1.0E-107
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.1E-46
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 8.9E-28
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.3E-11
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.2E-12
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.3E-22
Sequence
Target Sequence 
>C. ELEGANS:190798_AT
atgcacataacggtagtcttgctatggttgaatatgcaaaaatgctcgatttctttccaa
aaatatcaaaagagactgccataaaattggttaagcatggattattcatgtgtggatcac
tatcgttcagtcgtagatcaattcaaaagtacaactccgatatcttacgttttactgatg
gctctgtggcaggaaaaccaaaaactaattggaatggagtaatgttggatcatagaagaa
tagcccagaaaacattacattcaattcttcgtgtgaaattggattatgtagagtatttat
ttctcaaagcgattacgatgtgtaatccagctgtctccgattttcctgctgaagatcaga
aaataatcgataaacacagatttaattatgcacaaagccttctcaattattgtttgaaac
aacatggacagattcacggtgctgatcgatttgcatcaatactatcaattatgtcaatta
tggaagtgcagcaaaaagaagagaaaagttgttttttcgttttccgttcaatttattctg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCACATAACGGTAGTCTTGCTAT 21 43 656 Antisense
AAATGCTCGATTTCTTTCCAAAAAT 423 119 695 Antisense
GGATCACTATCGTTCAGTCGTAGAT 328 511 769 Antisense
GTACAACTCCGATATCTTACGTTTT 474 459 804 Antisense
ACGTTTTACTGATGGCTCTGTGGCA 344 93 822 Antisense
AACATTACATTCAATTCTTCGTGTG 86 139 906 Antisense
GTCTCCGATTTTCCTGCTGAAGATC 380 471 988 Antisense
TATGCACAAAGCCTTCTCAATTATT 416 657 1042 Antisense
ACAACATGGACAGATTCACGGTGCT 106 113 1074 Antisense
AGATTCACGGTGCTGATCGATTTGC 646 63 1085 Antisense
TTCGTTTTCCGTTCAATTTATTCTG 248 695 1171 Antisense
Sequence Source Affymetrix Proprietary Database