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[193245_s_at] C4-type zinc finger domain

Description K06A1.4 /REP_DB=WormBase Gene ID /WP=CE18017 /GEN=nhr-22 /TR=SW:Q09587 /GB=AAC24301.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=C4-type zinc finger domain
Cluster 6grp_highest_10_10 > 64      6grp_high1_10_10 > 46      4grp_high_8_8 > 05      6grp_highest_nonorm > 81      6grp_total > 47      4grp_total > 04      6grp_highest_sub > Cu      6grp_cgc > 26      6grp_high1_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1148
1 2 3 4 range
A 342
(-1.7)
P 		192.3
(-3)
P 		196
(-3)
P 		908.5
(3)
P 		716
B 357.2
(-2)
P 		163.2
(-3)
P 		181.7
(-2.9)
P 		1293.6
(3)
P 		1130
C 389.6
(-1.2)
P 		146
(-3)
M 		180.2
(-2.8)
P 		972.6
(3)
P 		827
avr 362.9
(-1.7) 		167.2
(-3) 		186
(-2.9) 		1058.2
(3) 		891

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 158
1 2 3 4 5 6 range
A 331.8
(1.3)
P 		327.3
(1.1)
P 		269
(-1.4)
P 		264.5
(-1.6)
P 		231.7
(-3)
P 		371.2
(3)
P 		140
B 314.5
(3)
P 		309.6
(2.7)
P 		213.7
(-3)
P 		303.9
(2.4)
P 		289.1
(1.5)
P 		300.7
(2.2)
P 		101
C 249.9
(-1.4)
P 		325.1
(3)
P 		278.3
(0.3)
P 		238.3
(-2)
P 		221.9
(-3)
P 		307.3
(2)
P 		103
avr 298.7
(0.9) 		320.7
(2.6) 		253.7
(-2.5) 		268.9
(-1.4) 		247.6
(-3) 		326.4
(3) 		79
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 235
1 2 3 4 range
A 124.5
(2.4)
P 		41.7
(-3)
P 		51.2
(-2.4)
P 		133
(3)
P 		91
B 113.9
(-1.1)
P 		40.3
(-3)
P 		42.1
(-3)
P 		275.7
(3)
P 		235
C 129
(1.3)
P 		42
(-3)
M 		62.8
(-2)
P 		164
(3)
P 		122
avr 122.5
(0.3) 		41.3
(-3) 		52
(-2.6) 		190.9
(3) 		150

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 70
1 2 3 4 5 6 range
A 61.2
(-2.7)
P 		116.4
(3)
P 		58.6
(-3)
P 		67.1
(-2.1)
P 		69.9
(-1.8)
P 		90.4
(0.3)
P 		58
B 109.4
(2.3)
P 		103.1
(1.7)
P 		51.9
(-3)
P 		80.5
(-0.4)
P 		117.4
(3)
P 		112.1
(2.5)
P 		66
C 92.6
(1.9)
P 		99.2
(2.6)
P 		70.8
(-0.5)
P 		47.9
(-3)
P 		71.8
(-0.4)
P 		102.9
(3)
P 		55
avr 87.7
(0.6) 		106.2
(3) 		60.4
(-3) 		65.2
(-2.4) 		86.4
(0.4) 		101.8
(2.4) 		46
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193245_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4312
Sequence Type Exemplar sequence
Representative Public ID K06A1.4 NCBI
Target Description K06A1.4 /REP_DB=WormBase Gene ID /WP=CE18017 /GEN=nhr-22 /TR=SW:Q09587 /GB=AAC24301.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=C4-type zinc finger domain
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_062897(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062897 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-22) (nhr-22) mRNA, complete cds. 11/11 None
SNAP00000007665 ENSEMBL cdna:SNAP chromosome:CEL140:II:6446308:6449735:-1 11/11 None
GENEFINDER00000007672 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6446294:6449735:-1 11/11 None
K06A1.4 ENSEMBL cdna:known chromosome:CEL140:II:6446073:6449754:-1 gene:K06A1.4 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
chrII:6446304-6449732(-) 100.0 100.0
Public Domain and Genome References
Gene Title C4-type zinc finger domain
Gene Symbol nhr-22
Ensembl K06A1.4
Entrez Gene 174066 Entrez gene
SwissProt Q09587 EMBL-EBI
WormBase CE18017 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 AAC24301 Nuclear hormone receptor family protein 22 [Caenorhabditis elegans] ref|NP_495298.1| Nuclear Hormone Receptor family member (nhr-22) [Caenorhabditis elegans] sp|Q09587|NHR22_CAEEL Nuclear hormone receptor family member nhr-22 0.0
blast AAG15122 nuclear receptor NHR-22 [Caenorhabditis elegans] 0.0
blast AAG15121 nuclear receptor NHR-22 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.0E-38
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.0E-16
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 8.2E-34
Sequence
Target Sequence 
>C. ELEGANS:193245_S_AT
tttccggagtttcaagctttacacaaaaatgacaaaaatgtggtctatcgaatggcttgc
gccgtagattcaatgcttgcatctgcctattatagctataaagttggaatagaaaaagaa
cgtctaatacttttcaatggtgactatatcaatatgaatccgattccaataagtggagat
gagccaggcgcgggaacagagtttcaaaccccgcaagaacatgaaaagtacaaaacccta
atgccactgaagctaaaacaatatttcgatctggcaattccgttcgctcgactagaagtc
tcatttgaagaatacgtacttctgaaagctctcataatttggcaaatcagtaactatcgg
ttactagaggagggacgagcaatttgtgcacggcaacgagacacaatagttcaagccttg
cataaagtagttgaagaacgaggtgatgaggatccagctattcgagttggtcagcttctt
ct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTCCGGAGTTTCAAGCTTTACACA 108 669 1147 Antisense
TGTGGTCTATCGAATGGCTTGCGCC 502 555 1185 Antisense
TGGCTTGCGCCGTAGATTCAATGCT 626 543 1199 Antisense
AATGCTTGCATCTGCCTATTATAGC 67 165 1218 Antisense
GAGCCAGGCGCGGGAACAGAGTTTC 640 383 1327 Antisense
GAGTTTCAAACCCCGCAAGAACATG 86 399 1345 Antisense
TTTCGATCTGGCAATTCCGTTCGCT 466 669 1410 Antisense
TTCCGTTCGCTCGACTAGAAGTCTC 318 699 1424 Antisense
AATACGTACTTCTGAAAGCTCTCAT 216 173 1457 Antisense
GGGACGAGCAATTTGTGCACGGCAA 507 493 1518 Antisense
CTATTCGAGTTGGTCAGCTTCTTCT 535 223 1604 Antisense
Sequence Source Affymetrix Proprietary Database