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[188610_at] zinc finger protein

Description Y46H3D.7 /REP_DB=WormBase Gene ID /WP=CE24324 /GB=AAK72310.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=zinc finger protein
Cluster 6grp_highest_10_10 > 55      6grp_high1_10_10 > 55      4grp_high_8_8 > 05      6grp_highest_nonorm > 90      6grp_total > 55      4grp_total > 03      6grp_cgc > 46      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 508
1 2 3 4 range
A 129.2
(-2)
P 		60.4
(-3)
A 		80.6
(-2.7)
P 		475.3
(3)
P 		415
B 164.8
(-2)
P 		120.8
(-2.6)
P 		85.2
(-3)
P 		568.2
(3)
P 		483
C 126.5
(-2.6)
P 		98.8
(-3)
P 		102.3
(-2.9)
P 		497.4
(3)
P 		399
avr 140.2
(-2.3) 		93.3
(-2.9) 		89.4
(-3) 		513.6
(3) 		424

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 152
1 2 3 4 5 6 range
A 126.1
(-0.5)
P 		138.1
(0)
P 		213.4
(3)
P 		144.2
(0.3)
P 		61.8
(-3)
P 		130.2
(-0.3)
P 		152
B 134.6
(-0.7)
P 		155.5
(0.4)
P 		204.7
(3)
P 		90.8
(-3)
P 		94.3
(-2.8)
P 		183.4
(1.9)
P 		114
C 120.2
(-0.5)
P 		175.4
(2)
P 		92
(-1.7)
P 		120.3
(-0.5)
P 		62.2
(-3)
P 		199.4
(3)
P 		137
avr 127
(0.3) 		156.3
(2.1) 		170
(2.9) 		118.4
(-0.2) 		72.8
(-3) 		171
(3) 		98
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 108
1 2 3 4 range
A 47
(0.6)
P 		13.1
(-3)
A 		21.1
(-2.2)
P 		69.6
(3)
P 		57
B 52.5
(-1.1)
P 		29.8
(-2.4)
P 		19.7
(-3)
P 		121.1
(3)
P 		101
C 41.9
(-1.5)
P 		28.4
(-3)
P 		35.7
(-2.2)
P 		83.9
(3)
P 		56
avr 47.1
(-0.9) 		23.8
(-3) 		25.5
(-2.8) 		91.5
(3) 		68

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 50
1 2 3 4 5 6 range
A 23.3
(-2.1)
P 		49.1
(3)
P 		46.5
(2.5)
P 		36.6
(0.5)
P 		18.7
(-3)
P 		31.7
(-0.4)
P 		30
B 46.8
(0.1)
P 		51.8
(0.8)
P 		49.7
(0.5)
P 		24
(-3)
P 		38.3
(-1.1)
P 		68.4
(3)
P 		44
C 44.6
(0.2)
P 		53.5
(1.3)
P 		23.4
(-2.6)
P 		24.2
(-2.5)
P 		20.1
(-3)
P 		66.7
(3)
P 		47
avr 38.2
(-0.5) 		51.5
(2.2) 		39.9
(-0.2) 		28.3
(-2.5) 		25.7
(-3) 		55.6
(3) 		30
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188610_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15385
Sequence Type Exemplar sequence
Representative Public ID Y46H3D.7 NCBI
Target Description Y46H3D.7 /REP_DB=WormBase Gene ID /WP=CE24324 /GB=AAK72310.1 /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_071060(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071060 NCBI Caenorhabditis elegans Y46H3D.7 (Y46H3D.7) mRNA, complete cds. 11/11 None
GENEFINDER00000018939 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1627958:1629256:-1 11/11 None
Y46H3D.7 ENSEMBL cdna:known chromosome:CEL140:V:1627958:1629256:-1 gene:Y46H3D.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000018926 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:1627957-1629256(-) 100.0 100.0
Public Domain and Genome References
Gene Title zinc finger protein
Gene Symbol nhr-238
Ensembl Y46H3D.7
Entrez Gene 189971 Entrez gene
SwissProt Q966B7 EMBL-EBI
WormBase CE24324 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 NP_503461 Y46H3D.7 [Caenorhabditis elegans] gb|AAK72310.1| Hypothetical protein Y46H3D.7 [Caenorhabditis elegans] 1.0E-167
blast CAE65522 Hypothetical protein CBG10497 [Caenorhabditis briggsae] 7.0E-70
blast NP_503460 Y46H3D.6 [Caenorhabditis elegans] gb|AAK72309.1| Hypothetical protein Y46H3D.6 [Caenorhabditis elegans] 5.0E-52
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 2.1E-13
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.0E-16
Sequence
Target Sequence 
>C. ELEGANS:188610_AT
gtgtgttcagtggatcttagtttagtagtggagacattggtgagaacattttataaaatg
gcgccaatggaagatgatcagcagaggcttcttgtcaaaaattttctggtggagtttatg
ctgatggatatgtcattcagatcaatagattccaatgtgatcattcttgctaacgggaac
tatgtggatgttaaaaatttagacgagcactttcaaagcaccaaaatagtttccgacgag
tcaaaagctgctgaagctaaactctatctgaaatcatattgggaaatggctgaaagtcag
ctcgtgggaaggtttcaagaacttcgagttgatcgtaatgagcatttattgttgtgtgcc
cttctttattgggatttcggtctggaaaaccaatcagaagaaagttcggaaatttgtttg
aagttgcgatccagaatattcaaggagttatcgaattacgaaagaaagcaatcgtcaaca
gagaaacagttttcaaggaccggagaccttattctaatact

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGTGTTCAGTGGATCTTAGTTTAG 145 489 394 Antisense
GATGATCAGCAGAGGCTTCTTGTCA 357 411 466 Antisense
AATGTGATCATTCTTGCTAACGGGA 410 163 547 Antisense
AGACGAGCACTTTCAAAGCACCAAA 367 71 594 Antisense
AAGCACCAAAATAGTTTCCGACGAG 676 149 609 Antisense
TTCCGACGAGTCAAAAGCTGCTGAA 513 695 624 Antisense
GCTGCTGAAGCTAAACTCTATCTGA 160 297 640 Antisense
AAGTCAGCTCGTGGGAAGGTTTCAA 288 155 687 Antisense
GAGCATTTATTGTTGTGTGCCCTTC 489 389 733 Antisense
GTGTGCCCTTCTTTATTGGGATTTC 249 487 747 Antisense
GGACCGGAGACCTTATTCTAATACT 138 519 890 Antisense
Sequence Source Affymetrix Proprietary Database