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[193449_at] Zinc finger, C2H2 type (5 domains)

Description F45B8.4 /REP_DB=WormBase Gene ID /WP=CE24977 /GEN=pag-3 /TR=O02265 /GB=CAB05729.2 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type (5 domains)
Cluster 6grp_total > 05      4grp_total > 38      6grp_cgc > 22      6grp_cgc_sub > De      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 241
1 2 3 4 range
A 213.9
(3)
P 		115.3
(-0.2)
A 		26.2
(-3)
A 		108.9
(-0.4)
A 		188
B 267.2
(3)
P 		112.3
(-2.5)
A 		97.8
(-3)
A 		98.1
(-3)
A 		169
C 198.7
(3)
P 		133.5
(-0.4)
P 		82
(-3)
A 		96.2
(-2.3)
A 		117
avr 226.6
(3) 		120.4
(-1) 		68.7
(-3) 		101.1
(-1.8) 		158

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 221
1 2 3 4 5 6 range
A 290.2
(3)
A 		176.3
(-0.1)
P 		138.5
(-1.1)
A 		104.4
(-2)
A 		116
(-1.7)
A 		68.8
(-3)
A 		221
B 274.7
(3)
P 		200.6
(0.7)
A 		109.7
(-2.2)
A 		133.5
(-1.5)
A 		124.3
(-1.8)
A 		85.4
(-3)
A 		189
C 210.3
(3)
P 		182.6
(1.7)
P 		169.8
(1.1)
A 		114.5
(-1.4)
A 		83.8
(-2.8)
P 		79.7
(-3)
A 		131
avr 258.4
(3) 		186.5
(0.6) 		139.3
(-1) 		117.5
(-1.7) 		108
(-2) 		78
(-3) 		180
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 78
1 2 3 4 range
A 77.9
(3)
P 		25
(-1.5)
A 		6.8
(-3)
A 		15.9
(-2.2)
A 		71
B 85.2
(3)
P 		27.7
(-2.4)
A 		22.7
(-2.8)
A 		20.9
(-3)
A 		64
C 65.8
(3)
P 		38.4
(-0.3)
P 		28.6
(-1.5)
A 		16.2
(-3)
A 		50
avr 76.3
(3) 		30.4
(-1.7) 		19.4
(-2.8) 		17.7
(-3) 		59

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 79
1 2 3 4 5 6 range
A 53.5
(1.8)
A 		62.7
(3)
P 		30.2
(-1.2)
A 		26.5
(-1.7)
A 		35
(-0.6)
A 		16.8
(-3)
A 		46
B 95.6
(3)
P 		66.8
(0.5)
A 		26.6
(-3)
A 		35.4
(-2.2)
A 		50.5
(-0.9)
A 		31.9
(-2.5)
A 		69
C 78
(3)
P 		55.7
(0.6)
P 		43.2
(-0.8)
A 		23
(-3)
A 		27.1
(-2.6)
P 		26.7
(-2.6)
A 		55
avr 75.7
(3) 		61.7
(1.3) 		33.3
(-2) 		28.3
(-2.6) 		37.5
(-1.5) 		25.1
(-3) 		51
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193449_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17463
Sequence Type Exemplar sequence
Representative Public ID F45B8.4 NCBI
Target Description F45B8.4 /REP_DB=WormBase Gene ID /WP=CE24977 /GEN=pag-3 /TR=O02265 /GB=CAB05729.2 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=Zinc finger, C2H2 type (5 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_078079(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078079 NCBI Caenorhabditis elegans PAttern of reporter Gene expression abnormal family member (pag-3) (pag-3) mRNA, complete cds. 11/11 None
F45B8.4 ENSEMBL cdna:known chromosome:CEL140:X:14951116:14954437:-1 gene:F45B8.4 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000024504 5/11 Cross Hyb Matching Probes None
SNAP00000024496 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:14951115-14954437(-) 100.0 100.0
Public Domain and Genome References
Gene Title Zinc finger, C2H2 type (5 domains)
Gene Symbol pag-3
Ensembl F45B8.4
Entrez Gene 181588 Entrez gene
SwissProt O02265 EMBL-EBI
WormBase CE24977 Wormbase
Functional Annotations
Gene Ontology
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
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
8270 zinc ion binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB05729 Hypothetical protein F45B8.4 [Caenorhabditis elegans] ref|NP_510480.1| PAttern of reporter Gene expression abnormal family member (pag-3) [Caenorhabditis elegans] gb|AAC47234.1| zinc finger protein PAG-3 [Caenorhabditis elegans] 1.0E-174
blast CAE63279 Hypothetical protein CBG07657 [Caenorhabditis briggsae] 1.0E-148
blast XP_393930 PREDICTED: similar to CG31632-PA [Apis mellifera] 7.0E-57
Protein Domains
Database ID Description E-Value
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 4.6E-7
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 2.5E-5
Pfam IPR007087 EMBL-EBI Zn-finger, C2H2 type 5.2E-7
Sequence
Target Sequence 
>C. ELEGANS:193449_AT
aaaagatcttccaccttatctacacaccttctgattcactccgacacaaggccgtatcca
tgtgaatactgtggaaaaagatttcatcagaagtcggacatgaaaaaacacacatatatt
catacaggtgaaaaaccacacaagtgtactgtatgtggaaaagcgttcagtcagtcttct
aaccttatcacccacacacgaaaacacactggatttaagccatttgcctgtgatgtatgt
ggtcggacgttccaacgcaaagtggaccgccgtcggcaccgcgagagtcaccatccgggc
caccccgaagaatgcgtgtctgcttctcaaatttcatcggatctctccccgaaaggatac
atgacacctccgacgagcaacgggtatctcgactcttccgatgaatttctcaacgtgttt
agattacccgccga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAAGATCTTCCACCTTATCTACAC 169 131 502 Antisense
TATCTACACACCTTCTGATTCACTC 660 659 518 Antisense
AGCGTTCAGTCAGTCTTCTAACCTT 330 79 663 Antisense
TTATCACCCACACACGAAAACACAC 693 679 686 Antisense
TATGTGGTCGGACGTTCCAACGCAA 289 655 737 Antisense
GCCACCCCGAAGAATGCGTGTCTGC 419 279 800 Antisense
CGTGTCTGCTTCTCAAATTTCATCG 337 245 816 Antisense
GGATCTCTCCCCGAAAGGATACATG 487 511 840 Antisense
TGACACCTCCGACGAGCAACGGGTA 225 571 863 Antisense
GACTCTTCCGATGAATTTCTCAACG 551 373 892 Antisense
TCAACGTGTTTAGATTACCCGCCGA 354 251 911 Antisense
Sequence Source Affymetrix Proprietary Database