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[192171_at] Probable RNA binding protein

Description EEED8.4 /REP_DB=WormBase Gene ID /WP=CE01888 /TR=SW:Q09295 /GB=AAC46764.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Probable RNA binding protein
Cluster 6grp_total > 68      4grp_total > 20      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 108
1 2 3 4 range
A 6.1
(-3)
A 		21.7
(-2.1)
A 		7
(-2.9)
A 		114
(3)
P 		108
B 87.6
(3)
A 		41.6
(-1)
A 		19.2
(-3)
A 		38.5
(-1.3)
A 		68
C 41.3
(-3)
A 		47.4
(-1.6)
A 		42.2
(-2.8)
A 		66.8
(3)
P 		26
avr 45
(-0.4) 		36.9
(-1.3) 		22.8
(-3) 		73.1
(3) 		50

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 139
1 2 3 4 5 6 range
A 60.1
(-1.2)
A 		42.6
(-2)
A 		61
(-1.1)
A 		23.6
(-3)
A 		50.4
(-1.7)
P 		143.1
(3)
P 		120
B 47.5
(-0.5)
A 		43
(-0.8)
P 		3.8
(-3)
A 		24.3
(-1.8)
A 		50.2
(-0.4)
P 		109.8
(3)
P 		106
C 23.1
(-1.7)
A 		51.2
(0.2)
P 		5
(-3)
A 		38.1
(-0.7)
A 		34
(-1)
P 		91.3
(3)
P 		86
avr 43.6
(-1.7) 		45.6
(-1.5) 		23.3
(-3) 		28.7
(-2.6) 		44.9
(-1.6) 		114.7
(3) 		91
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 26
1 2 3 4 range
A 2.2
(-2.8)
A 		4.7
(-1.8)
A 		1.8
(-3)
A 		16.7
(3)
P 		15
B 27.9
(3)
A 		10.3
(-1.5)
A 		4.5
(-3)
A 		8.2
(-2.1)
A 		23
C 13.7
(1.2)
A 		13.6
(1.1)
A 		14.7
(3)
A 		11.3
(-3)
P 		3
avr 14.6
(3) 		9.5
(-1) 		7
(-3) 		12.1
(1) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 40
1 2 3 4 5 6 range
A 11.1
(-1.9)
A 		15.1
(-1.1)
A 		13.3
(-1.5)
A 		6
(-3)
A 		15.2
(-1.1)
P 		34.8
(3)
P 		29
B 16.5
(-0.7)
A 		14.3
(-1)
P 		0.9
(-3)
A 		6.4
(-2.2)
A 		20.4
(-0.1)
P 		41
(3)
P 		40
C 8.6
(-1.5)
A 		15.6
(-0.1)
P 		1.3
(-3)
A 		7.7
(-1.7)
A 		11
(-1)
P 		30.6
(3)
P 		29
avr 12.1
(-1.6) 		15
(-1.1) 		5.2
(-3) 		6.7
(-2.7) 		15.5
(-1) 		35.5
(3) 		30
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192171_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.4098
Sequence Type Exemplar sequence
Representative Public ID EEED8.4 NCBI
Target Description EEED8.4 /REP_DB=WormBase Gene ID /WP=CE01888 /TR=SW:Q09295 /GB=AAC46764.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=Probable 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_062621(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_062621 NCBI Caenorhabditis elegans EEED8.4 (EEED8.4) mRNA, complete cds. 11/11 A 
EEED8.4 ENSEMBL cdna:known chromosome:CEL140:II:5409582:5411148:1 gene:EEED8.4 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000023173 6/11 Cross Hyb Matching Probes None
GENEFINDER00000023181 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:5409579-5411077(+) 100.0 100.0
Public Domain and Genome References
Gene Title Probable RNA binding protein
Ensembl EEED8.4
Entrez Gene 173921 Entrez gene
SwissProt Q09295 EMBL-EBI
WormBase CE01888 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC46764 Hypothetical protein EEED8.4 [Caenorhabditis elegans] ref|NP_495022.1| EEED8.4 [Caenorhabditis elegans] sp|Q09295|YQO4_CAEEL Hypothetical RNA-binding protein EEED8.4 in chromosome II 1.0E-110
blast AAC46772 Hypothetical protein EEED8.12 [Caenorhabditis elegans] ref|NP_495021.1| EEED8.12 [Caenorhabditis elegans] sp|Q09301|YQOC_CAEEL Hypothetical RNA-binding protein EEED8.12 in chromosome II 2.0E-74
blast CAE61482 Hypothetical protein CBG05376 [Caenorhabditis briggsae] 7.0E-54
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 6.7E-21
Sequence
Target Sequence 
>C. ELEGANS:192171_AT
ggaactgaccttattcgggtagatccaactgccaaaataaacaaagtcaccaaaatggca
accattaccgctgacaacaactccaacagccattttgaaatggaaattgaagcggaatct
gcaattctccagcaaattcagaacaagatggcaaagcatctggaatctgcagcatatgtt
ccaccaacagaagaagaacaaaaggcaattgatgctaagtctgttttcattggaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAACTGACCTTATTCGGGTAGATC 53 479 97 Antisense
TATTCGGGTAGATCCAACTGCCAAA 42 663 108 Antisense
GGTAGATCCAACTGCCAAAATAAAC 635 503 114 Antisense
CAAAGTCACCAAAATGGCAACCATT 683 189 138 Antisense
AAATGGCAACCATTACCGCTGACAA 582 119 149 Antisense
TTACCGCTGACAACAACTCCAACAG 146 683 161 Antisense
TGACAACAACTCCAACAGCCATTTT 470 571 168 Antisense
CAACTCCAACAGCCATTTTGAAATG 484 187 174 Antisense
AATCTGCAATTCTCCAGCAAATTCA 680 169 212 Antisense
GCAATTGATGCTAAGTCTGTTTTCA 550 323 301 Antisense
GATGCTAAGTCTGTTTTCATTGGAA 709 411 307 Antisense
Sequence Source Affymetrix Proprietary Database