[Home] | [Total List]

[192136_at] zinc finger protein

Description T01G6.7 /REP_DB=WormBase Gene ID /WP=CE13002 /GEN=nhr-55 /TR=O16962 /GB=AAG24179.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_highest_10_10 > 74      6grp_high1_10_10 > 47      4grp_high_8_8 > 18      6grp_highest_nonorm > 70      6grp_total > 47      4grp_total > 23      6grp_highest_sub > Cu      6grp_cgc > 17      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 211
1 2 3 4 range
A 329.8
(3)
P 		205.9
(-1.4)
P 		160.9
(-3)
A 		317.3
(2.6)
P 		169
B 317.6
(3)
P 		118.8
(-3)
A 		190.7
(-0.8)
P 		258.4
(1.2)
P 		199
C 236.1
(1.8)
P 		152.4
(-2.3)
A 		138.9
(-3)
P 		260.2
(3)
P 		121
avr 294.5
(3) 		159
(-3) 		163.5
(-2.8) 		278.6
(2.3) 		136

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 303
1 2 3 4 5 6 range
A 461.1
(3)
P 		296.8
(-0.6)
P 		261.7
(-1.4)
P 		212.7
(-2.5)
P 		189.2
(-3)
P 		431.5
(2.3)
P 		272
B 427.5
(2.9)
P 		311.5
(0.2)
P 		295.5
(-0.1)
P 		172.5
(-3)
P 		203.1
(-2.3)
P 		429.7
(3)
P 		257
C 364
(2.8)
P 		300.2
(1)
P 		260.8
(-0.1)
P 		201.3
(-1.8)
P 		158.2
(-3)
P 		372.2
(3)
P 		214
avr 417.5
(3) 		302.8
(0.1) 		272.7
(-0.7) 		195.5
(-2.7) 		183.5
(-3) 		411.1
(2.8) 		234
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 91
1 2 3 4 range
A 120.1
(3)
P 		44.7
(-2.8)
P 		42.1
(-3)
A 		46.4
(-2.7)
P 		78
B 101.3
(3)
P 		29.3
(-3)
A 		44.2
(-1.8)
P 		55.1
(-0.9)
P 		72
C 78.2
(3)
P 		43.8
(-3)
A 		48.4
(-2.2)
P 		43.9
(-3)
P 		34
avr 99.9
(3) 		39.3
(-3) 		44.9
(-2.4) 		48.5
(-2.1) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 120
1 2 3 4 5 6 range
A 85
(0.6)
P 		105.6
(3)
P 		57
(-2.6)
P 		53.9
(-3)
P 		57.1
(-2.6)
P 		105.1
(2.9)
P 		52
B 148.8
(2.4)
P 		103.7
(0)
P 		71.8
(-1.6)
P 		45.7
(-3)
P 		82.5
(-1.1)
P 		160.2
(3)
P 		115
C 134.9
(3)
P 		91.6
(0.2)
P 		66.4
(-1.4)
P 		40.5
(-3)
P 		51.2
(-2.3)
P 		124.6
(2.3)
P 		94
avr 122.9
(2.5) 		100.3
(0.9) 		65.1
(-1.7) 		46.7
(-3) 		63.6
(-1.8) 		130
(3) 		83
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192136_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14883
Sequence Type Exemplar sequence
Representative Public ID T01G6.7 NCBI
Target Description T01G6.7 /REP_DB=WormBase Gene ID /WP=CE13002 /GEN=nhr-55 /TR=O16962 /GB=AAG24179.1 /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,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_070814(11), AF273802(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070814 NCBI Caenorhabditis elegans Nuclear Hormone Receptor family member (nhr-55) (nhr-55) mRNA, complete cds. 11/11 None
AF273802 NCBI Caenorhabditis elegans clone yk412g5 nuclear receptor NHR-55 mRNA, partial cds. 11/11 None
SNAP00000003995 ENSEMBL cdna:SNAP chromosome:CEL140:V:477991:480467:1 11/11 None
GENEFINDER00000004009 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:477991:480467:1 11/11 None
T01G6.7.2 ENSEMBL cdna:known chromosome:CEL140:V:477989:480540:1 gene:T01G6.7 11/11 None
T01G6.7.1 ENSEMBL cdna:known chromosome:CEL140:V:477991:480540:1 gene:T01G6.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
AF273801 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:477897-480467(+) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-55
Ensembl T01G6.7
Entrez Gene 178570 Entrez gene
SwissProt O16962 EMBL-EBI
WormBase CE37786 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 AAG24179 Nuclear hormone receptor family protein 55 [Caenorhabditis elegans] ref|NP_503215.2| Nuclear Hormone Receptor family member (nhr-55) [Caenorhabditis elegans] gb|AAO39175.1| nuclear receptor NHR-55 [Caenorhabditis elegans] sp|O16962|NHR55_CAEEL Nuclear hormone receptor family member nhr-55 0.0
blast AAG15151 nuclear receptor NHR-55 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 5.9E-18
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.5E-5
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.6E-5
Sequence
Target Sequence 
>C. ELEGANS:192136_AT
gatgattttcagcagctctcacatagaatgcggtccgaaatgctcaagggaatgtggaag
gtgtggagtcgcctggagacgctggctcttacagcaatgggtcgcaggcttatgatttgc
caaaaggatatgatcatgacacataccgaaaaagagcaagtgatggctcatccgaagcaa
atagaagttgacatttcgtggtgttcgaggtatacgctggagcagttgagattcttcgcc
gacagtgacctcgatgaccgcaacgagcaggtaattcaggctatgatggagctgcagcca
actgatgtagaactttcctacatgatgtgccaagcttgccttcattacgccggtaaacgt
tatcaaggagaggtgctggaaattgctgaaaggttccaagagaccctgtcaaatcatcta
cacgattactatgtgaatcgtatgaatatgcctcagtactcgatgagagttgccaacctg
atgaagatcaataatcatattcagctcgacatataccgaggccgtgtgaaatacgatctg
gcgagggtgtttgatgtcttttacctggagttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGATTTTCAGCAGCTCTCACATA 141 411 778 Antisense
GAATGCGGTCCGAAATGCTCAAGGG 432 331 803 Antisense
GGCTCTTACAGCAATGGGTCGCAGG 9 537 861 Antisense
GTGTTCGAGGTATACGCTGGAGCAG 198 485 978 Antisense
GCTGGAGCAGTTGAGATTCTTCGCC 417 295 993 Antisense
GTGACCTCGATGACCGCAACGAGCA 17 483 1022 Antisense
GATGGAGCTGCAGCCAACTGATGTA 184 407 1062 Antisense
TACATGATGTGCCAAGCTTGCCTTC 640 643 1096 Antisense
TTGCCTTCATTACGCCGGTAAACGT 478 593 1113 Antisense
AGAGACCCTGTCAAATCATCTACAC 109 69 1176 Antisense
GTTTGATGTCTTTTACCTGGAGTTC 512 449 1326 Antisense
Sequence Source Affymetrix Proprietary Database