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[190220_at] steroid zinc finger

Description C56E10.1 /REP_DB=WormBase Gene ID /WP=CE04279 /TR=Q18895 /GB=AAA81156.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=steroid zinc finger
Cluster 6grp_total > 57      4grp_total > 21      6grp_cgc > 37      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 286
1 2 3 4 range
A 274.2
(2.9)
P 		101.9
(-3)
A 		108.9
(-2.8)
A 		277.1
(3)
P 		175
B 177.9
(-0.6)
P 		155.2
(-1.1)
P 		67.8
(-3)
A 		345.4
(3)
P 		278
C 323.7
(3)
P 		130.2
(-1.4)
M 		59.8
(-3)
A 		287.7
(2.2)
P 		264
avr 258.6
(1.8) 		129.1
(-1.7) 		78.8
(-3) 		303.4
(3) 		225

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 331
1 2 3 4 5 6 range
A 74.3
(1.4)
A 		68.5
(1)
A 		70.2
(1.1)
A 		69.2
(1)
A 		9.4
(-3)
A 		98.4
(3)
M 		89
B 131.6
(-1)
P 		98.2
(-1.9)
P 		69.2
(-2.6)
A 		63.7
(-2.7)
M 		51.9
(-3)
P 		295.1
(3)
P 		243
C 68.4
(-2.3)
P 		79.8
(-2)
A 		53.7
(-2.5)
A 		96.4
(-1.7)
A 		29.6
(-3)
A 		340.4
(3)
P 		311
avr 91.4
(-1.3) 		82.2
(-1.5) 		64.4
(-2) 		76.4
(-1.7) 		30.3
(-3) 		244.6
(3) 		214
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 91
1 2 3 4 range
A 99.8
(3)
P 		22.1
(-3)
A 		28.5
(-2.5)
A 		40.6
(-1.6)
P 		78
B 56.7
(1.2)
P 		38.3
(-0.7)
P 		15.7
(-3)
A 		73.6
(3)
P 		58
C 107.1
(3)
P 		37.4
(-1.8)
M 		20.8
(-3)
A 		48.5
(-1.1)
P 		86
avr 87.9
(3) 		32.6
(-2) 		21.7
(-3) 		54.2
(-0.1) 		66

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 111
1 2 3 4 5 6 range
A 13.7
(0)
A 		24.4
(3)
A 		15.3
(0.5)
A 		17.6
(1.1)
A 		2.8
(-3)
A 		24
(2.9)
M 		22
B 45.8
(-1.1)
P 		32.7
(-2)
P 		16.8
(-3)
A 		16.9
(-3)
M 		21.1
(-2.7)
P 		110.1
(3)
P 		93
C 25.4
(-2.1)
P 		24.4
(-2.1)
A 		13.7
(-2.8)
A 		19.4
(-2.4)
A 		9.6
(-3)
A 		113.9
(3)
P 		104
avr 28.3
(-1.6) 		27.2
(-1.7) 		15.3
(-2.7) 		18
(-2.4) 		11.2
(-3) 		82.7
(3) 		72
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190220_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16239
Sequence Type Exemplar sequence
Representative Public ID C56E10.1 NCBI
Target Description C56E10.1 /REP_DB=WormBase Gene ID /WP=CE04279 /TR=Q18895 /GB=AAA81156.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=steroid zinc finger
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_076718(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076718 NCBI Caenorhabditis elegans C56E10.1 (C56E10.1) mRNA, complete cds. 11/11 None
GENEFINDER00000019181 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6655502:6659707:1 10/11 None
SNAP00000019177 ENSEMBL cdna:SNAP chromosome:CEL140:X:6658631:6659707:1 10/11 None
C56E10.1 ENSEMBL cdna:known chromosome:CEL140:X:6656358:6659707:1 gene:C56E10.1 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
chrX:6656357-6659707(+) 100.0 100.0
Public Domain and Genome References
Gene Title steroid zinc finger
Gene Symbol nhr-173
Ensembl C56E10.1
Entrez Gene 183862 Entrez gene
SwissProt Q18895 EMBL-EBI
WormBase CE04279 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
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 AAA81156 Hypothetical protein C56E10.1 [Caenorhabditis elegans] ref|NP_509119.1| C56E10.1 [Caenorhabditis elegans] 0.0
blast CAE65768 Hypothetical protein CBG10857 [Caenorhabditis briggsae] 0.0
blast AAA81156 Hypothetical protein C56E10.1 [Caenorhabditis elegans] ref|NP_509119.1| C56E10.1 [Caenorhabditis elegans] 1.0E-170
blast CAE65768 Hypothetical protein CBG10857 [Caenorhabditis briggsae] 1.0E-124
blast AAA81156 Hypothetical protein C56E10.1 [Caenorhabditis elegans] ref|NP_509119.1| C56E10.1 [Caenorhabditis elegans] 1.0E-119
blast CAE65768 Hypothetical protein CBG10857 [Caenorhabditis briggsae] 3.0E-83
blast CAB02857 Hypothetical protein C50B6.8 [Caenorhabditis elegans] ref|NP_872233.1| C50B6.8 [Caenorhabditis elegans] 2.0E-68
blast CAB02857 Hypothetical protein C50B6.8 [Caenorhabditis elegans] ref|NP_872233.1| C50B6.8 [Caenorhabditis elegans] 4.0E-46
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.7E-47
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 9.8E-9
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.9E-48
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.3E-20
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 7.7E-45
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509119.1 1 13-35
C56E10.1 1 13-35
Sequence
Target Sequence 
>C. ELEGANS:190220_AT
gtttgtttatgatatcctcacctcggtagaatacgcaaaaacattcatgtttttacatca
aattgggaaagaagatcagattctactccttcgcgccgttgttttaaaacttatgcactt
gaatcaagcattctactcgtatgaaaataaatacgatatgatttttcacccggatggaac
tgtgccaccacattcctggaagaaaaatgaaaatccgaacgatagtattagtcaaatgat
gacaaaacaaaaaatggaagaaatgaaagaagaattcacactttccatacgtcaatttgt
gacatatcagttggataaaagagaatatgttttgttcaaagcgattacattatgtaatgc
gagtaagtatttttctatttccggattgtctgatcatgcaagggaagtggtgactcgaga
aaaagaaaaatatagcaaagccctcatgaaatactgtttggctaatcgtggaatgaaggg
accagctcattatgctgca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTTGTTTATGATATCCTCACCTCG 684 451 1029 Antisense
TATCCTCACCTCGGTAGAATACGCA 571 655 1041 Antisense
GAAGATCAGATTCTACTCCTTCGCG 78 339 1099 Antisense
GAATCAAGCATTCTACTCGTATGAA 318 327 1149 Antisense
TTTTCACCCGGATGGAACTGTGCCA 654 675 1191 Antisense
TGTGCCACCACATTCCTGGAAGAAA 396 557 1209 Antisense
AGAATTCACACTTTCCATACGTCAA 20 75 1299 Antisense
GTATTTTTCTATTTCCGGATTGTCT 405 453 1395 Antisense
AGCAAAGCCCTCATGAAATACTGTT 516 75 1462 Antisense
AATACTGTTTGGCTAATCGTGGAAT 221 173 1478 Antisense
GAAGGGACCAGCTCATTATGCTGCA 680 333 1503 Antisense
Sequence Source Affymetrix Proprietary Database