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[193824_s_at]

Description W04D2.6A /REP_DB=WormBase Gene ID /WP=CE21257 /TR=Q22859 /GB=CAA99945.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain)
Cluster 6grp_highest_10_10 > 65      6grp_high1_10_10 > 76      4grp_highest_8_8 > 45      4grp_high_8_8 > 08      6grp_highest_nonorm > 88      6grp_total > 56      4grp_total > 23      6grp_high1_sub > Da      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1058
1 2 3 4 range
A 1607.4
(3)
P 		845.5
(-3)
P 		1062.2
(-1.3)
P 		1294.6
(0.5)
P 		762
B 1903.2
(3)
P 		927.1
(-3)
P 		996.7
(-2.6)
P 		1521
(0.7)
P 		976
C 1876.9
(3)
P 		885.6
(-3)
P 		956
(-2.6)
P 		1743.4
(2.2)
P 		991
avr 1795.8
(3) 		886.1
(-3) 		1005
(-2.2) 		1519.7
(1.2) 		910

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1556
1 2 3 4 5 6 range
A 1001.9
(-2.5)
P 		1620.9
(1.5)
P 		983.6
(-2.6)
P 		1138.8
(-1.6)
P 		924.5
(-3)
P 		1849.3
(3)
P 		925
B 1217.9
(-1.5)
P 		1239.1
(-1.4)
P 		1527.4
(0.4)
P 		1169.8
(-1.8)
P 		968.7
(-3)
P 		1953.7
(3)
P 		985
C 1132.9
(-1.6)
P 		1473.3
(-0.3)
P 		1252.6
(-1.1)
P 		1022.3
(-2)
P 		767.9
(-3)
P 		2324.2
(3)
P 		1556
avr 1117.6
(-1.8) 		1444.4
(-0.1) 		1254.5
(-1.1) 		1110.3
(-1.8) 		887
(-3) 		2042.4
(3) 		1155
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 438
1 2 3 4 range
A 585.3
(3)
P 		183.5
(-3)
P 		277.7
(-1.6)
P 		189.5
(-2.9)
P 		402
B 606.9
(3)
P 		229
(-3)
P 		231
(-3)
P 		324.1
(-1.5)
P 		378
C 621.3
(3)
P 		254.6
(-3)
P 		333.2
(-1.7)
P 		294
(-2.4)
P 		367
avr 604.5
(3) 		222.4
(-3) 		280.6
(-2.1) 		269.2
(-2.3) 		382

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 593
1 2 3 4 5 6 range
A 184.7
(-3)
P 		576.5
(3)
P 		214.2
(-2.5)
P 		288.8
(-1.4)
P 		279
(-1.6)
P 		450.3
(1.1)
P 		392
B 423.8
(-1.4)
P 		412.4
(-1.5)
P 		370.9
(-2.1)
P 		309.9
(-3)
P 		393.6
(-1.8)
P 		728.5
(3)
P 		419
C 419.9
(-0.8)
P 		449.6
(-0.4)
P 		318.8
(-1.8)
P 		205.6
(-3)
P 		248.5
(-2.6)
P 		778
(3)
P 		572
avr 342.8
(-1.8) 		479.5
(0.3) 		301.3
(-2.5) 		268.1
(-3) 		307
(-2.4) 		652.3
(3) 		384
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193824_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12828
Sequence Type Exemplar sequence
Representative Public ID W04D2.6A NCBI
Target Description W04D2.6A /REP_DB=WormBase Gene ID /WP=CE21257 /TR=Q22859 /GB=CAA99945.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain)
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_073732(11), NM_073733(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_073732 NCBI Caenorhabditis elegans W04D2.6a (W04D2.6) mRNA, complete cds. 11/11 None
NM_073733 NCBI Caenorhabditis elegans W04D2.6b (W04D2.6) mRNA, complete cds. 11/11 None
SNAP00000023143 ENSEMBL cdna:SNAP chromosome:CEL140:V:12503864:12506104:1 11/11 None
GENEFINDER00000023150 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:12503864:12506104:1 11/11 None
W04D2.6a ENSEMBL cdna:known chromosome:CEL140:V:12500843:12506315:1 gene:W04D2.6 11/11 None
W04D2.6b ENSEMBL cdna:known chromosome:CEL140:V:12502669:12506104:1 gene:W04D2.6 11/11 None
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
chrV:12500880-12506104(+) 100.0 100.0
Public Domain and Genome References
Ensembl W04D2.6
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA99945 Hypothetical protein W04D2.6a [Caenorhabditis elegans] emb|CAA99937.2| Hypothetical protein W04D2.6a [Caenorhabditis elegans] ref|NP_506133.2| W04D2.6a [Caenorhabditis elegans] 0.0
blast CAE75501 Hypothetical protein CBG23510 [Caenorhabditis briggsae] 0.0
blast CAA99936 Hypothetical protein W04D2.6b [Caenorhabditis elegans] ref|NP_506134.2| W04D2.6b [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.6E-11
Pfam IPR002483 EMBL-EBI Splicing factor PWI 3.5E-40
Pfam IPR002483 EMBL-EBI Splicing factor PWI 3.5E-40
Pfam IPR002483 EMBL-EBI Splicing factor PWI 3.5E-40
Pfam IPR002483 EMBL-EBI Splicing factor PWI 3.5E-40
Sequence
Target Sequence 
>C. ELEGANS:193824_S_AT
agatcctaacactggttcgtctggtacaaatggaaatttcggatggaaagcgattggaga
tgactcttctctcaatacaaaaataaaccgccctatagctaacggaaatcaaaatcagcc
gcaaattaaaaaagaagcatctcctattccaattgctcaacgcctcagtggtgtgtttgg
aaatgatgacgatgaagacgatgtgcatagcaaaaagaagttgaaaccattcgagatcac
tagagaagagcgtatgcaagtcatgtcagctgaagaaaaaagagagctgacgaagcagat
aatcaaaactattcctgctacaaaaggcaagttatttcgaagaaaacatgaactttttgt
tcatagaatcgaatgggatcagctagatgggaaatggatgaatgatcgaattcgtccgtg
ggtggctaaaaaagtcactcaattccttggcgaagaagacaaatcgttctgtgatttcat
ctgtgatcaaattgagaaacaagcgacaccccaagaaatactcaaagacgtcgccgtcat
cattgacgagg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGATCCTAACACTGGTTCGTCTGGT 449 65 1524 Antisense
GGAGATGACTCTTCTCTCAATACAA 353 519 1579 Antisense
AAGAAGCATCTCCTATTCCAATTGC 299 153 1655 Antisense
CTCAACGCCTCAGTGGTGTGTTTGG 408 227 1679 Antisense
GAGCGTATGCAAGTCATGTCAGCTG 694 385 1771 Antisense
TCGAATTCGTCCGTGGGTGGCTAAA 264 599 1929 Antisense
AAAGTCACTCAATTCCTTGGCGAAG 187 123 1954 Antisense
ATCGTTCTGTGATTTCATCTGTGAT 630 35 1986 Antisense
ACAAGCGACACCCCAAGAAATACTC 248 113 2022 Antisense
AGAAATACTCAAAGACGTCGCCGTC 235 73 2037 Antisense
GACGTCGCCGTCATCATTGACGAGG 710 361 2050 Antisense
Sequence Source Affymetrix Proprietary Database