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[172940_x_at] nuclear hormone receptor

Description F44A6.2A /REP_DB=WormBase Gene ID /WP=CE03323 /GEN=sex-1 /TR=SW:P41830 /GB=CAA90722.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=nuclear hormone receptor
Cluster 6grp_highest_10_10 > 87      6grp_high1_10_10 > 77      4grp_highest_8_8 > 41      4grp_high_8_8 > 49      6grp_highest_nonorm > 92      6grp_total > 77      4grp_total > 62      6grp_highest_sub > Da      6grp_cgc > 48      6grp_high1_sub > Da      6grp_cgc_sub > Da      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 192
1 2 3 4 range
A 268.8
(3)
P 		219.4
(0.2)
P 		222.9
(0.4)
P 		161.7
(-3)
P 		107
B 293.9
(3)
P 		219
(0.7)
P 		199.9
(0.1)
P 		102.3
(-3)
P 		192
C 281.6
(3)
P 		209.3
(-0.3)
P 		220.9
(0.2)
P 		149.9
(-3)
P 		132
avr 281.4
(3) 		215.9
(0.3) 		214.6
(0.2) 		138
(-3) 		143

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 308
1 2 3 4 5 6 range
A 298.6
(-0.9)
P 		277.8
(-1.3)
P 		194.7
(-3)
P 		228.1
(-2.3)
P 		336.4
(-0.1)
P 		485
(3)
P 		290
B 177.4
(-3)
P 		222.9
(-2)
P 		208.3
(-2.3)
P 		210.7
(-2.2)
P 		240.6
(-1.6)
P 		439
(3)
P 		262
C 204.8
(-3)
P 		207.7
(-2.9)
P 		237.8
(-2.3)
P 		256.8
(-1.9)
P 		233.2
(-2.4)
P 		476.9
(3)
P 		272
avr 226.9
(-2.7) 		236.1
(-2.5) 		213.6
(-3) 		231.9
(-2.6) 		270.1
(-1.7) 		467
(3) 		253
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 76
1 2 3 4 range
A 97.9
(3)
P 		47.6
(-1.1)
P 		58.3
(-0.2)
P 		23.7
(-3)
P 		74
B 93.7
(3)
P 		54.1
(-0.3)
P 		46.3
(-1)
P 		21.8
(-3)
P 		72
C 93.2
(3)
P 		60.2
(0.1)
P 		77
(1.6)
P 		25.3
(-3)
P 		68
avr 94.9
(3) 		54
(-0.4) 		60.5
(0.1) 		23.6
(-3) 		71

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 121
1 2 3 4 5 6 range
A 55
(-2)
P 		98.8
(1.5)
P 		42.4
(-3)
P 		57.9
(-1.8)
P 		101.5
(1.7)
P 		118.1
(3)
P 		76
B 61.7
(-2.4)
P 		74.2
(-1.7)
P 		50.6
(-3)
P 		55.8
(-2.7)
P 		97.8
(-0.5)
P 		163.7
(3)
P 		113
C 75.9
(-1.7)
P 		63.4
(-2.3)
P 		60.5
(-2.5)
P 		51.6
(-3)
P 		75.5
(-1.7)
P 		159.7
(3)
P 		108
avr 64.2
(-2.2) 		78.8
(-1.3) 		51.2
(-3) 		55.1
(-2.8) 		91.6
(-0.5) 		147.2
(3) 		96
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 172940_x_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16415
Sequence Type Exemplar sequence
Representative Public ID F44A6.2A NCBI
Target Description F44A6.2A /REP_DB=WormBase Gene ID /WP=CE03323 /GEN=sex-1 /TR=SW:P41830 /GB=CAA90722.1 /SUBMIT=HINXTON /CHR=X /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_001029491(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029491 NCBI Caenorhabditis elegans Signal Element on X family member (sex-1) (sex-1) mRNA, complete cds. 11/11 None
SNAP00000009272 ENSEMBL cdna:SNAP chromosome:CEL140:X:10201550:10202644:-1 11/11 None
GENEFINDER00000009276 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:10201550:10205349:-1 11/11 None
F44A6.2a ENSEMBL cdna:known chromosome:CEL140:X:10201256:10205349:-1 gene:F44A6.2 11/11 A 
F44A6.2b ENSEMBL cdna:known chromosome:CEL140:X:10201483:10205349:-1 gene:F44A6.2 9/11 A 
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
chrX:10201549-10205349(-) 100.0 100.0
Public Domain and Genome References
Gene Title nuclear hormone receptor
Gene Symbol sex-1
Ensembl F44A6.2
Entrez Gene 181231 Entrez gene
SwissProt P41830 EMBL-EBI
WormBase CE03323 Wormbase
Functional Annotations
Ortholog
ID Title Organism
DROSOPHILA_2:1640770_A_AT Ecdysone-induced protein 78C dm
DROSGENOME1:143525_AT Ecdysone-induced protein 78C dm
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6355 regulation of transcription, DNA-dependent inferred from electronic annotation QuickGO AmiGO
16481 negative regulation of transcription inferred from direct assay QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5634 nucleus inferred from electronic annotation QuickGO AmiGO
5634 nucleus inferred from direct assay 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
4879 ligand-dependent nuclear receptor activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA90722 Hypothetical protein F44A6.2 [Caenorhabditis elegans] ref|NP_001024662.1| Signal Element on X family member (sex-1) [Caenorhabditis elegans] sp|P41830|CNR14_CAEEL Steroid hormone receptor family member cnr14 gb|AAA96982.1| steroid hormone receptor family member CNR14 0.0
blast AAC77795 SEX-1; NHR [Caenorhabditis elegans] 0.0
blast AAG15187 sex-1 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 9.2E-19
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.2E-52
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 9.2E-19
Sequence
Target Sequence 
>C. ELEGANS:172940_X_AT
actctacttgcttcgcattgttcgtggaatgtcgaacagagggcttatgcttcgagatgg
aagactcattgactttaagtctcttcaactgctctatggatcattggcggacgaaatgct
tgcatttgcaaaccatatcattacaattggatgtacagacggagatattgcactattcat
tgtccttattctttgccagccactaaccacggaacaacaattttctactaacttcaaaag
tcaattgcagttgctggaaatgtttgatttttacaagaaagttcttttccaaaaaatgac
atgccgcattgacggatgcgatacatacaaacaacttatgaaatgtattcatgaattgaa
tcgacttaatgagctacataaacagcaactcaatattcttcgagaaaatttgtcgttttt
aaacctgcctcctctcgttgtggaaatgttccaactctcaacacttccgttgcctgttaa
ccataacaaccaagagaaccaatatactcctgctccagagcatcagagccctcaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACTCTACTTGCTTCGCATTGTTCGT 61 101 1035 Antisense
CAGAGGGCTTATGCTTCGAGATGGA 635 203 1071 Antisense
GTCTCTTCAACTGCTCTATGGATCA 557 467 1113 Antisense
TATTCATTGTCCTTATTCTTTGCCA 680 663 1208 Antisense
CAGCCACTAACCACGGAACAACAAT 392 201 1231 Antisense
AATGACATGCCGCATTGACGGATGC 261 165 1329 Antisense
GCCTCCTCTCGTTGTGGAAATGTTC 49 281 1461 Antisense
AAATGTTCCAACTCTCAACACTTCC 520 119 1478 Antisense
CTTCCGTTGCCTGTTAACCATAACA 360 219 1498 Antisense
AGAGAACCAATATACTCCTGCTCCA 453 69 1527 Antisense
GCTCCAGAGCATCAGAGCCCTCAAC 87 299 1546 Antisense
Sequence Source Affymetrix Proprietary Database