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[190188_s_at] --- /// RNA-binding protein

Description H12I13.4 /REP_DB=WormBase Gene ID /WP=CE20960 /TR=Q9N5M6 /GB=AAF39879.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=RNA-binding protein
Cluster 6grp_total > 95      4grp_total > 40      6grp_cgc > 78      6grp_cgc_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 86
1 2 3 4 range
A 33.2
(-3)
A 		40.1
(-2.1)
A 		80.9
(3)
A 		77.6
(2.6)
A 		48
B 35
(-3)
A 		73.1
(1.6)
P 		85
(3)
P 		54.9
(-0.6)
A 		50
C 20.4
(-3)
A 		52.1
(-0.8)
P 		106.8
(3)
P 		58.1
(-0.4)
A 		86
avr 29.5
(-3) 		55.1
(-0.5) 		90.9
(3) 		63.5
(0.3) 		61

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 295
1 2 3 4 5 6 range
A 4.6
(-3)
A 		33.2
(-2.4)
A 		67
(-1.7)
P 		151.1
(-0)
P 		187.9
(0.7)
P 		299.6
(3)
P 		295
B 14.9
(-3)
A 		38.3
(-2.4)
A 		52.5
(-2)
P 		130.8
(-0)
P 		210.2
(2)
P 		247.5
(3)
P 		233
C 31.3
(-3)
A 		38.9
(-2.8)
A 		75.8
(-1.9)
M 		145.5
(-0.2)
P 		273
(3)
P 		254.6
(2.5)
P 		242
avr 16.9
(-3) 		36.8
(-2.5) 		65.1
(-1.8) 		142.5
(0) 		223.7
(2) 		267.2
(3) 		250
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 30
1 2 3 4 range
A 12.1
(-1.4)
A 		8.7
(-3)
A 		21.1
(3)
A 		11.4
(-1.7)
A 		12
B 11.2
(-3)
A 		18.1
(1.9)
P 		19.7
(3)
P 		11.7
(-2.6)
A 		9
C 6.8
(-3)
A 		15
(-1.4)
P 		37.2
(3)
P 		9.8
(-2.4)
A 		30
avr 10
(-3) 		13.9
(-1.5) 		26
(3) 		11
(-2.6) 		16

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 92
1 2 3 4 5 6 range
A 0.8
(-3)
A 		11.8
(-2.1)
A 		14.6
(-1.9)
P 		38.3
(0.1)
P 		56.7
(1.7)
P 		72.9
(3)
P 		72
B 5.2
(-3)
A 		12.7
(-2.5)
A 		12.8
(-2.5)
P 		34.6
(-1)
P 		85.4
(2.5)
P 		92.3
(3)
P 		87
C 11.6
(-3)
A 		11.9
(-3)
A 		19.3
(-2.4)
M 		29.3
(-1.6)
P 		88.4
(3)
P 		85.2
(2.8)
P 		77
avr 5.9
(-3) 		12.1
(-2.5) 		15.6
(-2.3) 		34.1
(-0.8) 		76.8
(2.5) 		83.5
(3) 		78
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 190188_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4533
Sequence Type Exemplar sequence
Representative Public ID H12I13.4 NCBI
Target Description H12I13.4 /REP_DB=WormBase Gene ID /WP=CE20960 /TR=Q9N5M6 /GB=AAF39879.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=RNA-binding 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_062815(11), NM_062819(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062815 NCBI Caenorhabditis elegans Fem-3 mRNA Binding Factor family member (fbf-1) (fbf-1) mRNA, complete cds. 11/11 A 
NM_062819 NCBI Caenorhabditis elegans Fem-3 mRNA Binding Factor family member (fbf-2) (fbf-2) mRNA, complete cds. 11/11 A 
SNAP00000015298 ENSEMBL cdna:SNAP chromosome:CEL140:II:6089096:6091326:-1 11/11 None
GENEFINDER00000015304 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6089096:6091326:-1 11/11 None
SNAP00000034376 ENSEMBL cdna:SNAP chromosome:CEL140:II:6078504:6080828:-1 11/11 None
GENEFINDER00000034380 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6078504:6080674:-1 11/11 None
H12I13.4 ENSEMBL cdna:known chromosome:CEL140:II:6078504:6080745:-1 gene:H12I13.4 11/11 A 
F21H12.5 ENSEMBL cdna:known chromosome:CEL140:II:6088831:6091434:-1 gene:F21H12.5 11/11 A 
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
chrII:6078500-6080671(-) 100.0 100.0
Public Domain and Genome References
Gene Title
RNA-binding protein
Gene Symbol fbf-2
fbf-1
Ensembl H12I13.4
F21H12.5
Entrez Gene 174016 Entrez gene
174017 Entrez gene
SwissProt Q09312 EMBL-EBI
Q9N5M6 EMBL-EBI
WormBase CE01916 Wormbase
CE20960 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3723 RNA binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAF39879 Fem-3 mrna binding factor protein 1 [Caenorhabditis elegans] ref|NP_495216.1| Fem-3 mRNA Binding Factor family member (fbf-1) [Caenorhabditis elegans] sp|Q9N5M6|FBF1_CAEEL Fem-3 mRNA binding factor 0.0
blast NP_495220 Fem-3 mRNA Binding Factor family member (fbf-2) [Caenorhabditis elegans] gb|AAC46716.1| Fem-3 mrna binding factor protein 2 [Caenorhabditis elegans] sp|Q09312|FBF2_CAEEL Fem-3 mRNA binding factor 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR001313 EMBL-EBI Pumilio/Puf RNA-binding 3.3E-6
Pfam IPR001313 EMBL-EBI Pumilio/Puf RNA-binding 7.3E-5
Pfam IPR001313 EMBL-EBI Pumilio/Puf RNA-binding 7.3E-5
Sequence
Target Sequence 
>C. ELEGANS:190188_S_AT
gctacgaacgagtatgccaattacataatacagcatattgtatccaatgatgatctggcc
gtatatcgggaatgtatcatagagaaatgcctcatgcgcaatcttctttcgttatcccag
gaaaagtttgcgtctcatgttgtagagaaagcattcctacatgcaccaatggaacttctt
gctgaaatgatggacgagattttcgacggatacatgccacacccgggcactggaaaagat
gctctcgatatcatgatgttccatcaattcggaaactacgtcgttcaatgcatgctgact
atttgctgtgatgctgtgtctggaagacgacaaacgaaagaagggagctatgaccatgca
aactcattccaagtttggctcaaaaagttgcactcgagagttacgaaagaaaggcatcgc
ttgtcaaggttctcatccggcaaaaagatgatcgagacgcttgcc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCTACGAACGAGTATGCCAATTACA 500 301 1231 Antisense
TTGTATCCAATGATGATCTGGCCGT 44 709 1268 Antisense
GATGGACGAGATTTTCGACGGATAC 190 407 1419 Antisense
CTCGATATCATGATGTTCCATCAAT 695 229 1474 Antisense
ACTACGTCGTTCAATGCATGCTGAC 443 99 1505 Antisense
CATGCTGACTATTTGCTGTGATGCT 81 211 1521 Antisense
ATTTGCTGTGATGCTGTGTCTGGAA 402 17 1531 Antisense
AAAGTTGCACTCGAGAGTTACGAAA 271 123 1614 Antisense
AGAAAGGCATCGCTTGTCAAGGTTC 318 73 1638 Antisense
TTGTCAAGGTTCTCATCCGGCAAAA 582 703 1651 Antisense
CAAAAAGATGATCGAGACGCTTGCC 356 191 1671 Antisense
Sequence Source Affymetrix Proprietary Database