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[189980_at] zinc finger protein

Description T27B7.4 /REP_DB=WormBase Gene ID /WP=CE24018 /TR=O16662 /GB=AAF02171.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_highest_10_10 > 05      6grp_high1_10_10 > 50      4grp_highest_8_8 > 22      4grp_high_8_8 > 06      6grp_highest_nonorm > 90      6grp_total > 41      4grp_total > 02      6grp_highest_sub > 03_04      6grp_cgc > 60      6grp_high1_sub > 03_04      6grp_total_sub > Hat      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 162
1 2 3 4 range
A 173.4
(-1.4)
P 		160.2
(-2)
P 		135.9
(-3)
P 		278
(3)
P 		142
B 163.1
(-2.5)
P 		156.7
(-3)
P 		200.6
(0.3)
P 		236.7
(3)
P 		80
C 136.1
(-3)
P 		151.9
(-2.4)
P 		150
(-2.5)
P 		297.4
(3)
P 		161
avr 157.5
(-2.9) 		156.3
(-3) 		162.2
(-2.7) 		270.7
(3) 		114

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 118
1 2 3 4 5 6 range
A 165.7
(-0.1)
P 		150.9
(-0.9)
P 		227.1
(3)
P 		201
(1.7)
P 		136.1
(-1.6)
P 		109.2
(-3)
P 		118
B 162.2
(-0.1)
P 		176.4
(1)
P 		201.7
(3)
P 		126.6
(-2.9)
P 		170.4
(0.6)
P 		125
(-3)
P 		77
C 174.6
(1.2)
P 		148.3
(-1)
P 		136.9
(-2)
P 		195.1
(3)
P 		125.5
(-3)
P 		146.4
(-1.2)
P 		70
avr 167.5
(0.9) 		158.5
(0.1) 		188.6
(3) 		174.2
(1.6) 		144
(-1.3) 		126.9
(-3) 		62
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 28
1 2 3 4 range
A 63.1
(3)
P 		34.8
(-3)
P 		35.5
(-2.9)
P 		40.7
(-1.7)
P 		28
B 52
(3)
P 		38.7
(-3)
P 		46.5
(0.5)
P 		50.4
(2.3)
P 		13
C 45.1
(-2)
P 		43.7
(-3)
P 		52.3
(3)
P 		50.1
(1.5)
P 		9
avr 53.4
(3) 		39.1
(-3) 		44.8
(-0.6) 		47.1
(0.4) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 43
1 2 3 4 5 6 range
A 30.5
(-2.1)
P 		53.7
(3)
P 		49.4
(2)
P 		51
(2.4)
P 		41.1
(0.2)
P 		26.6
(-3)
P 		27
B 56.4
(0.8)
P 		58.7
(1.2)
P 		49
(-0.4)
P 		33.5
(-3)
P 		69.2
(3)
P 		46.6
(-0.8)
P 		36
C 64.7
(3)
P 		45.2
(-0.9)
P 		34.8
(-3)
P 		39.2
(-2.1)
P 		40.6
(-1.8)
P 		49
(-0.2)
P 		30
avr 50.5
(2) 		52.5
(3) 		44.4
(-1.1) 		41.2
(-2.7) 		50.3
(1.9) 		40.7
(-3) 		12
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189980_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14928
Sequence Type Exemplar sequence
Representative Public ID T27B7.4 NCBI
Target Description T27B7.4 /REP_DB=WormBase Gene ID /WP=CE24018 /TR=O16662 /GB=AAF02171.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
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_071228(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071228 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-115) (nhr-115) mRNA, complete cds. 10/11 None
GENEFINDER00000042367 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2292002:2296718:1 11/11 None
T27B7.4 ENSEMBL cdna:known chromosome:CEL140:V:2292397:2294623:1 gene:T27B7.4 10/11 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:2292423-2294564(+) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-115
Ensembl T27B7.4
Entrez Gene 178708 Entrez gene
SwissProt O16662 EMBL-EBI
WormBase CE35785 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 AAF02171 Nuclear hormone receptor family protein 115 [Caenorhabditis elegans] ref|NP_503629.2| Nuclear Hormone Receptor family member (nhr-115) [Caenorhabditis elegans] gb|AAO39204.1| nuclear receptor NHR-115 [Caenorhabditis elegans] sp|O16662|NH115_CAEEL Nuclear hormone receptor family member nhr-115 0.0
blast E88968 protein T27B7.4 [imported] - Caenorhabditis elegans 0.0
blast AAB66135 Hypothetical protein T27B7.3 [Caenorhabditis elegans] ref|NP_503630.1| T27B7.3 [Caenorhabditis elegans] 0.0
blast AAC69036 Hypothetical protein T19H12.8 [Caenorhabditis elegans] ref|NP_504307.2| T19H12.8 [Caenorhabditis elegans] 1.0E-153
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.5E-8
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 5.8E-5
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 3.1E-4
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 4.7E-5
Sequence
Target Sequence 
>C. ELEGANS:189980_AT
gaaaacttgatcaatcccttcagataaagcttttacaagcaatttggcatgtttggagca
aaattcacaaatgtgcaagtacagcattttatcgaaaatcaaatccaaatgcaaaaccga
cgcagaaaattttacgaaatgtgtgtatggatcggatgcacgtgcacaaattggatacgt
catggatgagtgattatcctacggagcacgtgacaagaaacagatgcaaaaattgtattc
atttcagattcatgcttactcatcacgtgtacgacttcaaaattgtagaaagcctactta
agttggacccaacagacgtagaattaacttttatgtttgcccagctgtgctttgaatatg
ctggaaaacgatttcaaggagaaattctgaaaatcactgatcattttcaacaagtcctat
caaatgatctacaccactattatatcaccgatcagagaagggaacgttatttccagcgcc
tgacagatctaatgaaagttaacaatttgatacagagatccatctgggaaacacgacctc
atcgagaacttggt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAAACTTGATCAATCCCTTCAGAT 297 355 596 Antisense
GTGATTATCCTACGGAGCACGTGAC 615 483 785 Antisense
CAGATTCATGCTTACTCATCACGTG 148 207 840 Antisense
TACTCATCACGTGTACGACTTCAAA 83 645 852 Antisense
GTTGGACCCAACAGACGTAGAATTA 449 1 897 Antisense
ATGTTTGCCCAGCTGTGCTTTGAAT 581 47 928 Antisense
GATCATTTTCAACAAGTCCTATCAA 147 419 994 Antisense
AAGGGAACGTTATTTCCAGCGCCTG 484 157 1053 Antisense
ATTTCCAGCGCCTGACAGATCTAAT 320 17 1064 Antisense
ATCCATCTGGGAAACACGACCTCAT 662 37 1113 Antisense
AACACGACCTCATCGAGAACTTGGT 65 135 1125 Antisense
Sequence Source Affymetrix Proprietary Database