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[173881_at]

Description CEK006B5R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F18H3.3A /5_PRIME_EXT_DB=WormBase Gene ID /GB=D27926 /WB_GENE_ID=F18H3.3A /WP=CE02193 /CHR=X /FEA=Genomic Cluster /DEF=poly-adenylate binding protein; C.elegans cDNA clone yk6b5 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 90      6grp_high1_10_10 > 09      4grp_highest_8_8 > 30      4grp_high_8_8 > 05      6grp_highest_nonorm > 56      6grp_total > 19      4grp_total > 03      6grp_cgc > 97      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 3336
1 2 3 4 range
A 1851.9
(-1.1)
P 		1140.6
(-3)
P 		1536.7
(-1.9)
P 		3330.9
(3)
P 		2190
B 1763.6
(-2.1)
P 		1557.6
(-2.5)
P 		1304.1
(-3)
P 		4477
(3)
P 		3173
C 2009.4
(-2.9)
P 		2026.7
(-2.8)
P 		1971.1
(-3)
P 		3813.1
(3)
P 		1842
avr 1875
(-2.2) 		1575
(-3) 		1604
(-2.9) 		3873.7
(3) 		2299

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1202
1 2 3 4 5 6 range
A 2094.3
(-0.3)
P 		2273.5
(0.6)
P 		1571.4
(-3)
P 		2171.4
(0.1)
P 		2732.3
(3)
P 		1842
(-1.6)
P 		1161
B 2773.7
(3)
P 		2115.8
(-2.2)
P 		2010.8
(-3)
P 		2326
(-0.5)
P 		2212
(-1.4)
P 		2194.8
(-1.6)
P 		763
C 2507
(2.7)
P 		1890.6
(-3)
P 		2094.6
(-1.1)
P 		2429.3
(2)
P 		2541.6
(3)
P 		1918.3
(-2.7)
P 		651
avr 2458.3
(2.6) 		2093.3
(-1) 		1892.3
(-3) 		2308.9
(1.1) 		2495.3
(3) 		1985
(-2.1) 		603
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 706
1 2 3 4 range
A 674.3
(3)
P 		247.6
(-3)
P 		401.7
(-0.8)
P 		487.6
(0.4)
P 		427
B 562.4
(-0.6)
P 		384.7
(-2.2)
P 		302.2
(-3)
P 		954
(3)
P 		652
C 665.2
(1.7)
P 		582.7
(-3)
P 		687
(3)
P 		642.9
(0.5)
P 		104
avr 634
(1.7) 		405
(-3) 		463.6
(-1.8) 		694.8
(3) 		290

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 623
1 2 3 4 5 6 range
A 386.1
(-2.5)
P 		808.6
(2.8)
P 		342.2
(-3)
P 		550.7
(-0.4)
P 		824.5
(3)
P 		448.5
(-1.7)
P 		482
B 965.1
(3)
P 		704.3
(-0.3)
P 		488.3
(-3)
P 		616.1
(-1.4)
P 		898.7
(2.2)
P 		818.4
(1.2)
P 		477
C 929.2
(3)
P 		576.9
(-1.8)
P 		533.1
(-2.4)
P 		488.5
(-3)
P 		822.4
(1.5)
P 		642.2
(-0.9)
P 		441
avr 760.1
(1.7) 		696.6
(0.7) 		454.5
(-3) 		551.8
(-1.5) 		848.5
(3) 		636.4
(-0.2) 		394
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 173881_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.26058
Sequence Type Exemplar sequence
Representative Public ID CEK006B5R NCBI
Target Description CEK006B5R_rc /REP_DB=TREMBL Accession /5_PRIME_EXT_ID=F18H3.3A /5_PRIME_EXT_DB=WormBase Gene ID /GB=D27926 /WB_GENE_ID=F18H3.3A /WP=CE02193 /CHR=X /FEA=Genomic Cluster /DEF=poly-adenylate binding protein; C.elegans cDNA clone yk6b5 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
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_077859(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077859 NCBI Caenorhabditis elegans PolyA Binding protein family member (pab-2) (pab-2) mRNA, complete cds. 11/11 None
F18H3.3a.3 ENSEMBL cdna:known chromosome:CEL140:X:13522198:13527285:-1 gene:F18H3.3 11/11 A 
F18H3.3a.4 ENSEMBL cdna:known chromosome:CEL140:X:13522198:13525742:-1 gene:F18H3.3 11/11 A 
F18H3.3a.1 ENSEMBL cdna:known chromosome:CEL140:X:13522198:13527334:-1 gene:F18H3.3 11/11 A 
F18H3.3a.2 ENSEMBL cdna:known chromosome:CEL140:X:13522198:13527274:-1 gene:F18H3.3 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
181473 2 1 NM_077858 174888_at (11)
NM_077859 173881_at (11), 173882_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:13522834-13525739(-) 100.0 100.0
Public Domain and Genome References
Ensembl F18H3.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA90444 Hypothetical protein F18H3.3a [Caenorhabditis elegans] ref|NP_510260.1| PolyA Binding protein family member (pab-2) [Caenorhabditis elegans] 0.0
blast CAE63132 Hypothetical protein CBG07431 [Caenorhabditis briggsae] 0.0
blast CAA90446 Hypothetical protein F18H3.3b [Caenorhabditis elegans] ref|NP_510259.1| PolyA Binding protein family member (pab-2) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002004 EMBL-EBI Polyadenylate-binding protein/HECT-associated 1.9E-29
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 1.5E-21
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 6.6E-21
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 5.6E-22
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 4.0E-25
Sequence
Target Sequence 
>C. ELEGANS:173881_AT
aaaactaagctctctaacttcatcttgcatgccaaggtcgtaatattctctgatattcag
agcaaaaattgttggctatactttttggtactgaaagcagtattcattctgcatttcata
atttctcatccaatttttttaccttcccatttcctattgtactttcttcaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAAACTAAGCTCTCTAACTTCATCT 108 131 2085 Antisense
AGCTCTCTAACTTCATCTTGCATGC 175 81 2092 Antisense
ACTTCATCTTGCATGCCAAGGTCGT 431 103 2101 Antisense
GCCAAGGTCGTAATATTCTCTGATA 618 277 2115 Antisense
GAGCAAAAATTGTTGGCTATACTTT 145 391 2144 Antisense
GGCTATACTTTTTGGTACTGAAAGC 643 537 2158 Antisense
GAAAGCAGTATTCATTCTGCATTTC 637 359 2177 Antisense
CATTCTGCATTTCATAATTTCTCAT 305 217 2189 Antisense
CATAATTTCTCATCCAATTTTTTTA 480 213 2201 Antisense
TTCCCATTTCCTATTGTACTTTCTT 670 697 2228 Antisense
CCATTTCCTATTGTACTTTCTTCAA 374 269 2231 Antisense
Sequence Source Affymetrix Proprietary Database