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[189638_at] zinc finger protein

Description ZK6.4 /REP_DB=WormBase Gene ID /WP=CE19643 /TR=O61869 /GB=AAG45579.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_total > 76      4grp_total > 01      6grp_cgc > 57      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 113
1 2 3 4 range
A 10.4
(-2.8)
A 		6.8
(-3)
A 		38.2
(-1.3)
A 		116.9
(3)
A 		110
B 7.4
(-3)
A 		10.9
(-2.4)
A 		7.4
(-3)
A 		41.5
(3)
A 		34
C 9.5
(-1.9)
A 		9
(-2)
A 		4.2
(-3)
A 		34.1
(3)
A 		30
avr 9.1
(-3) 		8.9
(-3) 		16.6
(-2.2) 		64.2
(3) 		55

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 83
1 2 3 4 5 6 range
A 22.9
(-3)
A 		28.1
(-2.5)
A 		54.4
(-0.3)
A 		61.4
(0.3)
A 		58.2
(0.1)
A 		92
(3)
A 		69
B 37.3
(1.2)
A 		28.8
(-0)
A 		49.6
(3)
A 		46.3
(2.5)
A 		8.6
(-3)
A 		44.7
(2.3)
A 		41
C 9.1
(-3)
A 		36.1
(0.2)
A 		17.5
(-2)
A 		8.8
(-3)
A 		35.8
(0.2)
A 		60.1
(3)
A 		51
avr 23.1
(-3) 		31
(-1.9) 		40.5
(-0.5) 		38.8
(-0.8) 		34.2
(-1.4) 		65.6
(3) 		43
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 3.8
(-2.1)
A 		1.5
(-3)
A 		10
(0.3)
A 		17.1
(3)
A 		16
B 2.4
(-2.4)
A 		2.7
(-2.2)
A 		1.7
(-3)
A 		8.8
(3)
A 		7
C 3.2
(-0.6)
A 		2.6
(-1.5)
A 		1.5
(-3)
A 		5.8
(3)
A 		4
avr 3.1
(-2.4) 		2.3
(-3) 		4.4
(-1.5) 		10.6
(3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 21
1 2 3 4 5 6 range
A 4.2
(-3)
A 		10
(-1.1)
A 		11.8
(-0.5)
A 		15.6
(0.8)
A 		17.6
(1.4)
A 		22.4
(3)
A 		18
B 13
(1.3)
A 		9.6
(-0.2)
A 		12
(0.9)
A 		12.3
(1)
A 		3.5
(-3)
A 		16.7
(3)
A 		13
C 3.4
(-2.5)
A 		11
(0)
A 		4.4
(-2.1)
A 		1.8
(-3)
A 		11.6
(0.2)
A 		20.1
(3)
A 		18
avr 6.9
(-3) 		10.2
(-1.5) 		9.4
(-1.8) 		9.9
(-1.6) 		10.9
(-1.1) 		19.7
(3) 		13
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189638_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15840
Sequence Type Exemplar sequence
Representative Public ID ZK6.4 NCBI
Target Description ZK6.4 /REP_DB=WormBase Gene ID /WP=CE19643 /TR=O61869 /GB=AAG45579.1 /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_070787(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070787 NCBI Caenorhabditis elegans ZK6.4 (ZK6.4) mRNA, complete cds. 11/11 None
SNAP00000041439 ENSEMBL cdna:SNAP chromosome:CEL140:V:397361:398585:1 11/11 None
GENEFINDER00000041451 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:395503:398585:1 11/11 None
ZK6.4 ENSEMBL cdna:known chromosome:CEL140:V:396656:398585:1 gene:ZK6.4 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
chrV:396655-398585(+) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-253
Ensembl ZK6.4
Entrez Gene 191205 Entrez gene
SwissProt O61869 EMBL-EBI
WormBase CE19643 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 AAG45579 Hypothetical protein ZK6.4 [Caenorhabditis elegans] ref|NP_503188.1| ZK6.4 [Caenorhabditis elegans] 0.0
blast T33201 hypothetical protein ZK6.4 - Caenorhabditis elegans 0.0
blast AAG45579 Hypothetical protein ZK6.4 [Caenorhabditis elegans] ref|NP_503188.1| ZK6.4 [Caenorhabditis elegans] 1.0E-156
blast T33201 hypothetical protein ZK6.4 - Caenorhabditis elegans 1.0E-156
blast AAG45572 Hypothetical protein ZK6.2 [Caenorhabditis elegans] ref|NP_503191.1| ZK6.2 [Caenorhabditis elegans] 1.0E-129
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.9E-59
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.3E-7
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.9E-59
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 4.9E-59
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 3.3E-7
Sequence
Target Sequence 
>C. ELEGANS:189638_AT
tgctcccttgttaccgtagatttcatgaagaaattcccgtttgtaaaccttctaagattt
gaggaccagaagtatctgctaaaagagttttatataaagctcatcgtgtttatcagctca
aaacggtcaatgtcacgtggaaaagaatgtatgacatttcccgatggctcagacgtttta
ccaccggcgtcttcggaatggcatatatcgaaaatctctccaaatttggaaaataagatt
agatgtcggctgattggacggttgagcgagcttcggatcactgatgaggagtatctgttg
atgtgtgtgctgatattttgtaatccatctctatcgcaactctccgaaaacggaagacga
ctcctgacctcctaccagcacctctacagctcggctcttctacaatattgccttctcact
tacgaaaaagctggaccagcaagattcgcggagctactcggaatttgccacgtcattgga
gttcagtacgacgacgcgattcactataacgtcctggtgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGCTCCCTTGTTACCGTAGATTTCA 701 581 460 Antisense
TTCCCGATGGCTCAGACGTTTTACC 627 695 617 Antisense
CCACCGGCGTCTTCGGAATGGCATA 637 273 640 Antisense
GACGGTTGAGCGAGCTTCGGATCAC 372 377 716 Antisense
TATTTTGTAATCCATCTCTATCGCA 304 663 773 Antisense
ATCTCTATCGCAACTCTCCGAAAAC 353 31 786 Antisense
CAGCTCGGCTCTTCTACAATATTGC 684 201 846 Antisense
AATATTGCCTTCTCACTTACGAAAA 211 169 863 Antisense
AGCTACTCGGAATTTGCCACGTCAT 310 79 911 Antisense
GGAGTTCAGTACGACGACGCGATTC 484 517 937 Antisense
GCGATTCACTATAACGTCCTGGTGC 446 281 955 Antisense
Sequence Source Affymetrix Proprietary Database