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[192172_s_at] Probable RNA binding protein /// 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_high1_10_10 > 67      6grp_total > 68      4grp_total > 21      6grp_high1_sub > Da      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 59
1 2 3 4 range
A 16.3
(-1.7)
A 		51.5
(3)
A 		23.3
(-0.8)
A 		6.6
(-3)
A 		45
B 45.4
(1.9)
A 		18.7
(-1.4)
A 		5.4
(-3)
A 		54.3
(3)
A 		49
C 34.3
(-0.3)
A 		8.8
(-3)
A 		30.7
(-0.6)
A 		64.6
(3)
P 		56
avr 32
(0.3) 		26.3
(-1.2) 		19.8
(-3) 		41.8
(3) 		22

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 276
1 2 3 4 5 6 range
A 60.2
(-1.9)
P 		55.1
(-2.1)
A 		96.8
(-0.1)
P 		37.5
(-3)
A 		63
(-1.7)
P 		159.3
(3)
P 		122
B 97
(-1.8)
P 		46.5
(-2.9)
A 		69.7
(-2.4)
P 		43.5
(-3)
P 		102.6
(-1.7)
P 		306.6
(3)
P 		263
C 95.6
(-1.3)
P 		65.9
(-2.1)
P 		57.3
(-2.3)
A 		30.6
(-3)
A 		78.3
(-1.7)
P 		253.6
(3)
P 		223
avr 84.3
(-1.6) 		55.8
(-2.4) 		74.6
(-1.9) 		37.2
(-3) 		81.3
(-1.7) 		239.8
(3) 		203
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14
1 2 3 4 range
A 5.9
(-0.1)
A 		11.2
(3)
A 		6.1
(0)
A 		1
(-3)
A 		10
B 14.5
(3)
A 		4.6
(-1.5)
A 		1.2
(-3)
A 		11.6
(1.7)
A 		13
C 11.4
(3)
A 		2.5
(-3)
A 		10.7
(2.5)
A 		10.9
(2.7)
P 		9
avr 10.6
(3) 		6.1
(-2.9) 		6
(-3) 		7.8
(-0.7) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 108
1 2 3 4 5 6 range
A 11.1
(-2.7)
P 		19.6
(-0.9)
A 		21.1
(-0.6)
P 		9.5
(-3)
A 		19
(-1.1)
P 		38.8
(3)
P 		29
B 33.8
(-1.7)
P 		15.5
(-2.8)
A 		16.9
(-2.7)
P 		11.5
(-3)
P 		41.7
(-1.2)
P 		114.3
(3)
P 		103
C 35.4
(-0.8)
P 		20.1
(-1.9)
P 		14.6
(-2.4)
A 		6.1
(-3)
A 		25.4
(-1.5)
P 		84.9
(3)
P 		79
avr 26.8
(-1.5) 		18.4
(-2.2) 		17.5
(-2.3) 		9
(-3) 		28.7
(-1.3) 		79.3
(3) 		70
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192172_s_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), NM_062620(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 
NM_062620 NCBI Caenorhabditis elegans EEED8.12 (EEED8.12) mRNA, complete cds. 11/11 A 
SNAP00000023172 ENSEMBL cdna:SNAP chromosome:CEL140:II:5408330:5408974:-1 11/11 None
SNAP00000023173 ENSEMBL cdna:SNAP chromosome:CEL140:II:5410453:5411079:1 11/11 None
GENEFINDER00000023181 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:5410453:5411079:1 11/11 None
GENEFINDER00000023188 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:5408330:5408974:-1 11/11 None
EEED8.12 ENSEMBL cdna:known chromosome:CEL140:II:5408306:5408990:-1 gene:EEED8.12 11/11 A 
EEED8.4 ENSEMBL cdna:known chromosome:CEL140:II:5409582:5411148:1 gene:EEED8.4 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:5409579-5411077(+) 100.0 100.0
Public Domain and Genome References
Gene Title Probable RNA binding protein
Probable RNA binding protein
Ensembl EEED8.12
EEED8.4
Entrez Gene 173921 Entrez gene
173922 Entrez gene
SwissProt Q09301 EMBL-EBI
Q09295 EMBL-EBI
WormBase CE01885 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 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 2.0E-82
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 1.0E-74
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 6.7E-21
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 4.9E-21
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 6.7E-21
Sequence
Target Sequence 
>C. ELEGANS:192172_S_AT
gcagcatatgttccaccaacagaagaagaacaaaaggcaattgatgctaagtctgttttc
attggaaatgtagatttcaactctacaattgaagaaatcgaagagcattttaaaggatgt
ggacagattgtgaaaactacaattccaaaggataaattcacgaaaaaacagaaaaatttt
gcatacattgaattcgatgactcatccagcattgaaaatgcacttgtaatgaatggatca
ttgttcagaagcagaccaattgtggtcactgccaaaagaacaaatattcctggaatggga
catggtgtacgtggatcatcaagaggaaccttcggaagaggacgtggagctgctcgcgga
gcaccaggaagacaacagacagtcgttgtcaagtatgtctatgtaaatggtccaaatcgg
ggaggacgtggt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAGCATATGTTCCACCAACAGAAG 41 315 265 Antisense
GCATACATTGAATTCGATGACTCAT 177 309 445 Antisense
TCGATGACTCATCCAGCATTGAAAA 319 601 458 Antisense
GGATCATTGTTCAGAAGCAGACCAA 44 513 499 Antisense
GCAGACCAATTGTGGTCACTGCCAA 367 311 515 Antisense
GGGACATGGTGTACGTGGATCATCA 322 493 561 Antisense
GGATCATCAAGAGGAACCTTCGGAA 467 511 577 Antisense
CTTCGGAAGAGGACGTGGAGCTGCT 696 219 594 Antisense
ACAGACAGTCGTTGTCAAGTATGTC 235 109 639 Antisense
GTATGTCTATGTAAATGGTCCAAAT 612 453 657 Antisense
TGGTCCAAATCGGGGAGGACGTGGT 551 541 672 Antisense
Sequence Source Affymetrix Proprietary Database