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[192438_at] Zinc finger, C4 type (two domains)

Description F57A8.5 /REP_DB=WormBase Gene ID /WP=CE05986 /TR=Q20916 /GB=CAA94833.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_total > 46      4grp_total > 19      6grp_cgc > 26      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 20.1
(-2.4)
A 		17.8
(-3)
A 		26.4
(-0.8)
A 		41.3
(3)
A 		24
B 28.1
(3)
A 		22.6
(1.6)
A 		4.4
(-3)
A 		20.1
(1)
A 		24
C 8.8
(-1.8)
A 		31.2
(2.2)
A 		2.4
(-3)
A 		35.4
(3)
A 		33
avr 19
(-0.8) 		23.9
(0.6) 		11.1
(-3) 		32.3
(3) 		21

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 34
1 2 3 4 5 6 range
A 24.9
(1)
A 		2.9
(-3)
A 		4.6
(-2.7)
A 		7.6
(-2.1)
A 		9
(-1.9)
A 		35.8
(3)
A 		33
B 21
(0.3)
A 		27.8
(3)
A 		22.8
(1)
A 		22.7
(1)
A 		18.1
(-0.8)
A 		12.6
(-3)
A 		15
C 17.2
(-0.5)
A 		30.5
(1.8)
A 		28.3
(1.5)
A 		37
(3)
A 		3.3
(-3)
A 		20.8
(0.1)
A 		34
avr 21
(2) 		20.4
(1.8) 		18.6
(0.9) 		22.4
(2.7) 		10.1
(-3) 		23.1
(3) 		13
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 8
1 2 3 4 range
A 7.3
(3)
A 		3.9
(-3)
A 		6.9
(2.3)
A 		6
(0.7)
A 		3
B 9
(3)
A 		5.6
(0.5)
A 		1
(-3)
A 		4.3
(-0.5)
A 		8
C 2.9
(-1.5)
A 		9
(3)
A 		0.8
(-3)
A 		6
(0.8)
A 		8
avr 6.4
(3) 		6.2
(2.7) 		2.9
(-3) 		5.4
(1.3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 8
1 2 3 4 5 6 range
A 4.6
(-0.2)
A 		1
(-3)
A 		1
(-3)
A 		1.9
(-2.3)
A 		2.7
(-1.7)
A 		8.7
(3)
A 		8
B 7.3
(0.5)
A 		9.2
(3)
A 		5.5
(-1.9)
A 		6
(-1.3)
A 		7.3
(0.5)
A 		4.7
(-3)
A 		5
C 6.4
(0.9)
A 		9.3
(3)
A 		7.2
(1.5)
A 		7.4
(1.6)
A 		1.1
(-3)
A 		7
(1.3)
A 		8
avr 6.1
(1.6) 		6.5
(2.4) 		4.6
(-1.3) 		5.1
(-0.3) 		3.7
(-3) 		6.8
(3) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192438_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11573
Sequence Type Exemplar sequence
Representative Public ID F57A8.5 NCBI
Target Description F57A8.5 /REP_DB=WormBase Gene ID /WP=CE05986 /TR=Q20916 /GB=CAA94833.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
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_073183(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073183 NCBI Caenorhabditis elegans F57A8.5 (F57A8.5) mRNA, complete cds. 10/11 None
GENEFINDER00000034044 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:10071779:10073222:-1 10/11 None
F57A8.5 ENSEMBL cdna:known chromosome:CEL140:V:10071950:10073222:-1 gene:F57A8.5 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:10071949-10073222(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-192
Ensembl F57A8.5
Entrez Gene 186431 Entrez gene
SwissProt Q20916 EMBL-EBI
WormBase CE34036 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 CAA94833 Hypothetical protein F57A8.5 [Caenorhabditis elegans] ref|NP_505584.2| F57A8.5 [Caenorhabditis elegans] 0.0
blast NP_504934 C54F6.8 [Caenorhabditis elegans] gb|AAG24018.1| Hypothetical protein C54F6.8 [Caenorhabditis elegans] 2.0E-74
blast CAE57784 Hypothetical protein CBG00806 [Caenorhabditis briggsae] 2.0E-70
blast NP_504934 C54F6.8 [Caenorhabditis elegans] gb|AAG24018.1| Hypothetical protein C54F6.8 [Caenorhabditis elegans] 2.0E-70
blast CAE57784 Hypothetical protein CBG00806 [Caenorhabditis briggsae] 6.0E-67
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 9.6E-47
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 1.2E-18
Sequence
Target Sequence 
>C. ELEGANS:192438_AT
gggcttttttggcaatttattctcacatctcatactttttgaacttcgactttgtaaatg
agctacatgatattgacaaggtttgtaaacttgaaaagctgccgcatatagttgatgtat
ttaagaaaattattttccaacatacgattttgaagttaacatatttttgtggagtcatga
gaactgtcaatgaaaaacgatcaaaaatgatgaatccagggggacaagaaatatatccag
atgttatcttgcaattatacgaaaagtcaaaaagcaccttacacaggatatgctgccaac
cattagataagcttcttgagtgggaagtgacagatgaggagtactgtttgatgaacttgc
tattcttctgtaatccggcgatcccagaaatatcagaggatgcagtcgtaaaactatcaa
ggcaacaaaatatctacagcaatgctctttttacactttgtcaacggaataatgaacaaa
cggctccagaaaggttttcgaactttatatcgttatatcttacaataactaagaattcac
aagagatggaaaacttcttcttgatatttaacgttcattctcctgattttgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGCTTTTTTGGCAATTTATTCTCA 414 493 488 Antisense
TTTATTCTCACATCTCATACTTTTT 65 675 503 Antisense
AAAGCTGCCGCATATAGTTGATGTA 199 125 582 Antisense
GCACCTTACACAGGATATGCTGCCA 303 315 761 Antisense
GGATATGCTGCCAACCATTAGATAA 123 511 773 Antisense
AACTTGCTATTCTTCTGTAATCCGG 189 139 841 Antisense
GTAATCCGGCGATCCCAGAAATATC 603 459 857 Antisense
GCAATGCTCTTTTTACACTTTGTCA 105 323 926 Antisense
GAATAATGAACAAACGGCTCCAGAA 487 325 954 Antisense
GATGGAAAACTTCTTCTTGATATTT 600 405 1032 Antisense
TAACGTTCATTCTCCTGATTTTGAT 155 639 1056 Antisense
Sequence Source Affymetrix Proprietary Database