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[192624_at] Zinc finger, C4 type (two domains)

Description F55D12.3 /REP_DB=WormBase Gene ID /WP=CE05956 /TR=Q20831 /GB=CAA99860.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=Zinc finger, C4 type (two domains)
Cluster 6grp_total > 01      4grp_total > 08      6grp_cgc > 64      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 54
1 2 3 4 range
A 11.6
(-1.9)
A 		2.5
(-3)
A 		23.7
(-0.5)
A 		54.2
(3)
A 		52
B 27.8
(3)
A 		19.9
(0.4)
A 		9.3
(-3)
A 		15.9
(-0.9)
A 		19
C 1
(-3)
A 		21.8
(-0.7)
A 		25.1
(-0.3)
A 		55.3
(3)
M 		54
avr 13.5
(-3) 		14.7
(-2.7) 		19.4
(-1.7) 		41.8
(3) 		28

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 38
1 2 3 4 5 6 range
A 23.5
(2.6)
A 		14.6
(-0.3)
A 		6.2
(-3)
A 		24.8
(3)
A 		22.5
(2.3)
A 		13.8
(-0.5)
A 		19
B 2.2
(-3)
A 		5.6
(-1.8)
A 		3.3
(-2.6)
A 		3.2
(-2.7)
A 		19.5
(3)
A 		5.3
(-1.9)
A 		17
C 2.7
(-3)
A 		40.5
(3)
A 		12.2
(-1.5)
A 		9.7
(-1.9)
A 		9.8
(-1.8)
A 		2.5
(-3)
A 		38
avr 9.5
(-1.9) 		20.2
(3) 		7.2
(-3) 		12.6
(-0.5) 		17.3
(1.7) 		7.2
(-3) 		13
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 9
1 2 3 4 range
A 4.2
(0)
A 		0.5
(-3)
A 		6.2
(1.6)
A 		7.9
(3)
A 		7
B 8.8
(3)
A 		4.9
(-0.5)
A 		2.2
(-3)
A 		3.4
(-1.9)
A 		7
C 0.3
(-3)
A 		6.3
(1)
A 		8.8
(2.7)
A 		9.3
(3)
M 		9
avr 4.4
(-2) 		3.9
(-3) 		5.7
(0.6) 		6.9
(3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 12
1 2 3 4 5 6 range
A 4.3
(0.2)
A 		5.2
(1.2)
A 		1.4
(-3)
A 		6.3
(2.4)
A 		6.8
(3)
A 		3.4
(-0.8)
A 		5
B 0.8
(-3)
A 		1.9
(-2.1)
A 		0.8
(-3)
A 		0.8
(-3)
A 		7.9
(3)
A 		2
(-2)
A 		7
C 1
(-2.9)
A 		12.4
(3)
A 		3.1
(-1.8)
A 		1.9
(-2.4)
A 		3.2
(-1.8)
A 		0.8
(-3)
A 		12
avr 2
(-2.7) 		6.5
(3) 		1.8
(-3) 		3
(-1.5) 		6
(2.4) 		2.1
(-2.6) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192624_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.729
Sequence Type Exemplar sequence
Representative Public ID F55D12.3 NCBI
Target Description F55D12.3 /REP_DB=WormBase Gene ID /WP=CE05956 /TR=Q20831 /GB=CAA99860.1 /SUBMIT=HINXTON /CHR=1 /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_059779(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059779 NCBI Caenorhabditis elegans F55D12.3 (F55D12.3) mRNA, complete cds. 11/11 None
F55D12.3 ENSEMBL cdna:known chromosome:CEL140:I:7904251:7905851:1 gene:F55D12.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000016628 6/11 Cross Hyb Matching Probes None
GENEFINDER00000016632 5/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:7904181-7905782(+) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C4 type (two domains)
Gene Symbol nhr-191
Ensembl F55D12.3
Entrez Gene 186309 Entrez gene
SwissProt Q20831 EMBL-EBI
WormBase CE05956 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 CAA99860 Hypothetical protein F55D12.3 [Caenorhabditis elegans] ref|NP_492180.1| F55D12.3 [Caenorhabditis elegans] 0.0
blast CAA90298 Hypothetical protein T07C5.5 [Caenorhabditis elegans] ref|NP_510119.1| T07C5.5 [Caenorhabditis elegans] 7.0E-77
blast CAE63732 Hypothetical protein CBG08259 [Caenorhabditis briggsae] 4.0E-64
Protein Domains
Database ID Description E-Value
Pfam IPR000536 EMBL-EBI Ligand-binding domain of nuclear hormone receptor 1.9E-29
Pfam IPR001628 EMBL-EBI Zn-finger, C4-type steroid receptor 2.6E-13
Sequence
Target Sequence 
>C. ELEGANS:192624_AT
gggagttatgaatcacttgacttgcatcagttttgctcggaaattgaattttatgaaata
tttgtcaagtgaagatattaaatcaattttcaaaagttctcatcttccatttatgcttct
tgtaactgcaatgcattcattttcaagaaaatctgcacaaatggttcatccagatggaac
tgacgttttccaacagaaatacaaaatcaaattggaaaatataatgcatattttctcaat
gaaatccgatgtaaaacaaactaagttagttttggaaaaattattcattgaaaactctaa
cgtagatcttttatctaaacgcgtacttcttattcgaatgggttgcaccgaaaaaacagc
accaaacatgtcaaaatctggagcaatgattctaacagaatatcaaaagaaatacagcaa
cacactttttcactattgccgtacagtcaatacaaagtatggaccatcccgttacattga
g

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGGAGTTATGAATCACTTGACTTGC 571 495 477 Antisense
TTGACTTGCATCAGTTTTGCTCGGA 107 703 493 Antisense
AGTTCTCATCTTCCATTTATGCTTC 169 65 571 Antisense
TTATGCTTCTTGTAACTGCAATGCA 554 679 587 Antisense
AAAATCTGCACAAATGGTTCATCCA 564 133 624 Antisense
GGAACTGACGTTTTCCAACAGAAAT 52 531 652 Antisense
ATCTAAACGCGTACTTCTTATTCGA 525 29 789 Antisense
CTTCTTATTCGAATGGGTTGCACCG 80 219 802 Antisense
TACAGCAACACACTTTTTCACTATT 703 643 889 Antisense
CTTTTTCACTATTGCCGTACAGTCA 540 221 901 Antisense
GTATGGACCATCCCGTTACATTGAG 447 453 933 Antisense
Sequence Source Affymetrix Proprietary Database