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[193701_s_at] Zinc finger, C4 type (two domains)

Description K06B4.11 /REP_DB=WormBase Gene ID /WP=CE27770 /GEN=nhr-53 /TR=SW:O17933 /GB=CAB05768.2 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_highest_10_10 > 77      6grp_high1_10_10 > 77      6grp_highest_nonorm > 92      6grp_total > 77      4grp_total > 02      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 > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1547
1 2 3 4 range
A 116.8
(-3)
P 		172.7
(-2.7)
A 		220.9
(-2.5)
P 		1401.8
(3)
P 		1285
B 119.4
(-3)
P 		106.8
(-3)
A 		132
(-2.9)
P 		1646.8
(3)
P 		1540
C 100.2
(-3)
P 		168.6
(-2.7)
A 		151.4
(-2.8)
P 		1424
(3)
P 		1324
avr 112.1
(-3) 		149.4
(-2.8) 		168.1
(-2.8) 		1490.9
(3) 		1379

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 534
1 2 3 4 5 6 range
A 201.1
(-2.3)
P 		161.5
(-3)
P 		277.4
(-1.1)
P 		170.1
(-2.9)
P 		277.8
(-1.1)
P 		525
(3)
P 		364
B 201.2
(-2.6)
P 		171
(-3)
P 		182.7
(-2.9)
P 		213.9
(-2.5)
P 		314.6
(-1.2)
P 		645.4
(3)
P 		474
C 122.8
(-3)
P 		264
(-1.4)
P 		212.2
(-2)
P 		283.4
(-1.2)
P 		215
(-2)
P 		656.4
(3)
P 		534
avr 175
(-3) 		198.8
(-2.7) 		224.1
(-2.3) 		222.5
(-2.3) 		269.1
(-1.7) 		608.9
(3) 		434
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 325
1 2 3 4 range
A 42.5
(-2.8)
P 		37.5
(-3)
A 		57.8
(-2.3)
P 		205.2
(3)
P 		168
B 38.1
(-2.8)
P 		26.4
(-3)
A 		30.6
(-2.9)
P 		350.9
(3)
P 		325
C 33.2
(-3)
P 		48.5
(-2.6)
A 		52.8
(-2.4)
P 		240.1
(3)
P 		207
avr 37.9
(-3) 		37.5
(-3) 		47.1
(-2.7) 		265.4
(3) 		228

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 204
1 2 3 4 5 6 range
A 37.1
(-3)
P 		57.5
(-1.7)
P 		60.4
(-1.5)
P 		43.1
(-2.6)
P 		83.8
(0.1)
P 		127.8
(3)
P 		91
B 70
(-2.2)
P 		56.9
(-2.6)
P 		44.4
(-3)
P 		56.7
(-2.6)
P 		127.8
(-0.5)
P 		240.7
(3)
P 		196
C 45.5
(-3)
P 		80.6
(-1.8)
P 		54
(-2.7)
P 		57
(-2.6)
P 		69.6
(-2.2)
P 		219.7
(3)
P 		174
avr 50.9
(-3) 		65
(-2.4) 		52.9
(-2.9) 		52.3
(-2.9) 		93.7
(-1.2) 		196.1
(3) 		145
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193701_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14073
Sequence Type Exemplar sequence
Representative Public ID K06B4.11 NCBI
Target Description K06B4.11 /REP_DB=WormBase Gene ID /WP=CE27770 /GEN=nhr-53 /TR=SW:O17933 /GB=CAB05768.2 /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_171556(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171556 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-53) (nhr-53) mRNA, complete cds. 11/11 None
SNAP00000010515 ENSEMBL cdna:SNAP chromosome:CEL140:V:15703248:15704943:-1 11/11 None
GENEFINDER00000010520 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:15701141:15704943:-1 11/11 None
K06B4.11 ENSEMBL cdna:known chromosome:CEL140:V:15703190:15704949:-1 gene:K06B4.11 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:15703247-15704943(-) 99.91 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-53
Ensembl K06B4.11
Entrez Gene 180053 Entrez gene
SwissProt O17933 EMBL-EBI
WormBase CE27770 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 CAB05768 Hypothetical protein K06B4.11 [Caenorhabditis elegans] ref|NP_741644.1| Nuclear Hormone Receptor family member (nhr-53) [Caenorhabditis elegans] sp|O17933|NHR53_CAEEL Nuclear hormone receptor family member nhr-53 0.0
blast AAG15148 nuclear receptor NHR-53 [Caenorhabditis elegans] 0.0
blast AAG15147 nuclear receptor NHR-53 [Caenorhabditis elegans] 0.0
blast T23372 hypothetical protein K06B4.11 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.2E-32
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.5E-29
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.2E-32
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.3E-22
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 9.0E-24
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 7.9E-21
Sequence
Target Sequence 
>C. ELEGANS:193701_S_AT
attcctttgcgaagcatttcccgagtactctgagctccttccagacacaaaacgatcgct
ttttaagaattttttcctaccattcacacttttggagagctcatattatggatatttgac
gaagcaagaaaatgtgatgctcattccttcgggcgactacgttgatttggctcatctaga
gtcatatttcaacaataatcatcacacgttttctcaaaaagacactatttcgatgtttgc
tcagcaatttcgaatgctccacacttctataactgttccgttgagtgctgaaaatgtaga
tgttaatgagtttctagctctagcggctataattctctgggaatccgatttagaagtaga
agccgatcggaagaatgttcaagaggaagctgtgaagattaagagcgctattatcaagga
tctactttttcactatcaatctataaatgtatacgctgacgtggcaatgaggcttggcgc
tgttttgtccatacttccttcaattcagagagccagtcaccgtttccacgagtatatgga
aatcaaaaatctgctcaatttgtatgctctgccc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCCTTTGCGAAGCATTTCCCGAG 195 9 525 Antisense
GAATTTTTTCCTACCATTCACACTT 394 325 591 Antisense
ATTCCTTCGGGCGACTACGTTGATT 635 5 667 Antisense
AATAATCATCACACGTTTTCTCAAA 3 173 718 Antisense
GACACTATTTCGATGTTTGCTCAGC 401 367 745 Antisense
AATTTCGAATGCTCCACACTTCTAT 305 175 770 Antisense
CTCTAGCGGCTATAATTCTCTGGGA 349 229 842 Antisense
TACGCTGACGTGGCAATGAGGCTTG 543 647 976 Antisense
ATACTTCCTTCAATTCAGAGAGCCA 145 25 1015 Antisense
CCAGTCACCGTTTCCACGAGTATAT 569 271 1037 Antisense
TCTGCTCAATTTGTATGCTCTGCCC 529 609 1074 Antisense
Sequence Source Affymetrix Proprietary Database