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[193993_s_at]

Description F18H3.3B /REP_DB=WormBase Gene ID /WP=CE03230 /TR=Q19581 /GB=CAA90446.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain) (4 domains)
Cluster 6grp_highest_10_10 > 29      6grp_high1_10_10 > 09      4grp_highest_8_8 > 23      4grp_high_8_8 > 06      6grp_highest_nonorm > 37      6grp_total > 90      4grp_total > 03      6grp_highest_sub > 04_05      6grp_cgc > 97      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11638
1 2 3 4 range
A 3326.9
(-2.5)
P 		2277.2
(-3)
P 		2333.6
(-3)
P 		13914.8
(3)
P 		11638
B 3269.9
(-2.5)
P 		2385.8
(-3)
P 		2411
(-3)
P 		12526.1
(3)
P 		10140
C 3277.4
(-2.5)
P 		2417
(-3)
P 		2765.3
(-2.8)
P 		11924.7
(3)
P 		9508
avr 3291.4
(-2.5) 		2360
(-3) 		2503.3
(-2.9) 		12788.5
(3) 		10429

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2806
1 2 3 4 5 6 range
A 4376.7
(-0.6)
P 		4985.7
(1)
P 		3481.4
(-3)
P 		5734.6
(3)
P 		4231.1
(-1)
P 		4982.2
(1)
P 		2253
B 4727.9
(3)
P 		4255.5
(0.1)
P 		3761.4
(-3)
P 		4733
(3)
P 		4323.3
(0.5)
P 		4260.6
(0.1)
P 		972
C 4911.6
(-0.3)
P 		3792.6
(-3)
P 		4838.9
(-0.5)
P 		4366.2
(-1.6)
P 		6287.5
(3)
P 		3843.7
(-2.9)
P 		2495
avr 4672.1
(1.2) 		4344.6
(-0.9) 		4027.2
(-3) 		4944.6
(3) 		4947.3
(3) 		4362.2
(-0.8) 		920
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2175
1 2 3 4 range
A 1211.3
(-0.2)
P 		494.3
(-3)
P 		610.1
(-2.5)
P 		2036.9
(3)
P 		1543
B 1042.7
(-1.6)
P 		589.2
(-2.9)
P 		558.7
(-3)
P 		2669.3
(3)
P 		2111
C 1084.9
(-1.2)
P 		694.9
(-3)
P 		963.8
(-1.8)
P 		2010.7
(3)
P 		1316
avr 1113
(-1.1) 		592.8
(-3) 		710.9
(-2.6) 		2239
(3) 		1646

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1276
1 2 3 4 5 6 range
A 806.8
(-2.7)
P 		1773.2
(3)
P 		758.2
(-3)
P 		1454.4
(1.1)
P 		1276.8
(0.1)
P 		1213
(-0.3)
P 		1015
B 1645.1
(2.2)
P 		1416.5
(0.6)
P 		913.4
(-3)
P 		1253.6
(-0.6)
P 		1756.5
(3)
P 		1588.8
(1.8)
P 		843
C 1820.5
(1.9)
P 		1157.2
(-1.6)
P 		1231.6
(-1.2)
P 		878.1
(-3)
P 		2034.5
(3)
P 		1286.7
(-0.9)
P 		1156
avr 1424.1
(0.8) 		1449
(1) 		967.7
(-3) 		1195.4
(-1.1) 		1689.3
(3) 		1362.8
(0.3) 		722
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193993_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17739
Sequence Type Exemplar sequence
Representative Public ID F18H3.3B NCBI
Target Description F18H3.3B /REP_DB=WormBase Gene ID /WP=CE03230 /TR=Q19581 /GB=CAA90446.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain) (4 domains)
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_077858(11), NM_077859(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077858 NCBI Caenorhabditis elegans PolyA Binding protein family member (pab-2) (pab-2) mRNA, complete cds. 11/11 None
NM_077859 NCBI Caenorhabditis elegans PolyA Binding protein family member (pab-2) (pab-2) mRNA, complete cds. 11/11 A 
SNAP00000001958 ENSEMBL cdna:SNAP chromosome:CEL140:X:13523124:13525738:-1 11/11 None
GENEFINDER00000001960 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:13523124:13525738:-1 11/11 None
F18H3.3b ENSEMBL cdna:known chromosome:CEL140:X:13522181:13525738:-1 gene:F18H3.3 11/11 A 
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.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:13522622-13525738(-) 100.0 100.0
Public Domain and Genome References
Ensembl F18H3.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA90446 Hypothetical protein F18H3.3b [Caenorhabditis elegans] ref|NP_510259.1| PolyA Binding protein family member (pab-2) [Caenorhabditis elegans] 0.0
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
Protein Domains
Database ID Description E-Value
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
Pfam IPR002004 EMBL-EBI Polyadenylate-binding protein/HECT-associated 1.9E-29
Sequence
Target Sequence 
>C. ELEGANS:193993_S_AT
ggattcggtttcgtgtgctttgagaagccagaagaggcaaccgctgccgtcactgatatg
aactccaaaatgattggagccaagccactgtatgtggcccttgctcaacgcaaggaggat
cgtcgtgctcagttggcatctcagtacatgcaaagacttgcaactcttcgcatgggacag
caggccagcggagttccagcaatgactcagctctaccagccaggacaacaaggatacttt
gttccaaatccaatgaatgctcaagggcgtccaggattccagccacaatctgctcaaatt
cgcggaccaccaggacaacgcgtgttccaaaaccagatgttcatgcaatatccattcaat
cagcgccaagtttacccacaacaacagggacgtccaccaatgcgaaccaacgatggtcgt
ccacaatatggaatggctccaagaccagccggagcaccacgtgtcggaggacctggagtg
cagatgggaggggcacctattcgtca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATTCGGTTTCGTGTGCTTTGAGA 96 509 1162 Antisense
CGCTGCCGTCACTGATATGAACTCC 381 255 1203 Antisense
AAGCCACTGTATGTGGCCCTTGCTC 368 149 1243 Antisense
TCGTGCTCAGTTGGCATCTCAGTAC 544 603 1284 Antisense
GCAACTCTTCGCATGGGACAGCAGG 662 319 1321 Antisense
GTTCCAGCAATGACTCAGCTCTACC 402 441 1354 Antisense
TCAAGGGCGTCCAGGATTCCAGCCA 636 631 1422 Antisense
CCACAATCTGCTCAAATTCGCGGAC 340 271 1444 Antisense
GCAATATCCATTCAATCAGCGCCAA 402 323 1506 Antisense
CACCACGTGTCGGAGGACCTGGAGT 22 201 1616 Antisense
AGATGGGAGGGGCACCTATTCGTCA 504 59 1643 Antisense
Sequence Source Affymetrix Proprietary Database