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[194118_s_at]

Description Y106G6H.2 /REP_DB=WormBase Gene ID /WP=CE20412 /TR=Q9U302 /GB=CAA21572.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain) ; Poly-adenylate binding protein, unique domain.
Cluster 6grp_highest_10_10 > 60      6grp_high1_10_10 > 06      4grp_highest_8_8 > 15      4grp_high_8_8 > 13      6grp_highest_nonorm > 17      6grp_total > 07      4grp_total > 10      6grp_highest_sub > De      6grp_cgc > 11      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14014
1 2 3 4 range
A 19428.4
(-2.7)
P 		22547.4
(-1.2)
P 		18825
(-3)
P 		31576.4
(3)
P 		12751
B 20197
(-2.2)
P 		18888.6
(-3)
P 		19285.9
(-2.8)
P 		28564.4
(3)
P 		9676
C 17628.6
(-3)
P 		18412.8
(-2.6)
P 		17562
(-3)
P 		29138
(3)
P 		11576
avr 19084.7
(-2.7) 		19949.6
(-2.3) 		18557.6
(-3) 		29759.6
(3) 		11202

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7113
1 2 3 4 5 6 range
A 13848.9
(2.2)
P 		14705.3
(3)
P 		8898.8
(-2.6)
P 		13876.1
(2.2)
P 		8433.9
(-3)
P 		14135.8
(2.5)
P 		6271
B 11727
(3)
P 		10756.1
(1.2)
P 		10405.5
(0.6)
P 		9636.2
(-0.8)
P 		8466.7
(-3)
P 		8638.2
(-2.7)
P 		3260
C 15546.4
(3)
P 		9195.8
(-2.4)
P 		14374.8
(2)
P 		8929.1
(-2.7)
P 		13262.3
(1)
P 		8544.6
(-3)
P 		7002
avr 13707.4
(3) 		11552.4
(-0.5) 		11226.4
(-1.1) 		10813.8
(-1.8) 		10054.3
(-3) 		10439.5
(-2.4) 		3653
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2605
1 2 3 4 range
A 7073.9
(3)
P 		4894.4
(-2.3)
P 		4921.2
(-2.3)
P 		4622.2
(-3)
P 		2452
B 6440.7
(3)
P 		4665
(-2.4)
P 		4469
(-3)
P 		6087.1
(1.9)
P 		1972
C 5835.5
(1.6)
P 		5293.8
(-1.1)
P 		6120.9
(3)
P 		4913.1
(-3)
P 		1208
avr 6450
(3) 		4951.1
(-3) 		5170.4
(-2.1) 		5207.5
(-2) 		1499

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3967
1 2 3 4 5 6 range
A 2552.9
(-1.9)
P 		5229.9
(3)
P 		1938
(-3)
P 		3519.3
(-0.1)
P 		2545
(-1.9)
P 		3441.6
(-0.3)
P 		3292
B 4080.4
(3)
P 		3580.3
(1.1)
P 		2526.8
(-3)
P 		2552.3
(-2.9)
P 		3439.9
(0.5)
P 		3221.2
(-0.3)
P 		1554
C 5762.4
(3)
P 		2805.9
(-1.5)
P 		3658.6
(-0.2)
P 		1795.7
(-3)
P 		4291.5
(0.8)
P 		2860.4
(-1.4)
P 		3967
avr 4131.9
(3) 		3872
(2) 		2707.8
(-2.7) 		2622.4
(-3) 		3425.5
(0.2) 		3174.4
(-0.8) 		1510
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 194118_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2136
Sequence Type Exemplar sequence
Representative Public ID Y106G6H.2 NCBI
Target Description Y106G6H.2 /REP_DB=WormBase Gene ID /WP=CE20412 /TR=Q9U302 /GB=CAA21572.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=RNA recognition motif. (aka RRM, RBD, or RNP domain) ; Poly-adenylate binding protein, unique 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,GenBank identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_001026539(11), NM_001026538(11), NM_001026540(11), U24123(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026539 NCBI Caenorhabditis elegans PolyA Binding protein family member (pab-1) (pab-1) mRNA, complete cds. 11/11 None
NM_001026538 NCBI Caenorhabditis elegans PolyA Binding protein family member (pab-1) (pab-1) mRNA, complete cds. 11/11 None
NM_001026540 NCBI Caenorhabditis elegans PolyA Binding protein family member (pab-1) (pab-1) mRNA, complete cds. 11/11 None
U24123 NCBI Caenorhabditis elegans polyadenylate-binding protein mRNA, complete cds. 11/11 None
SNAP00000001702 ENSEMBL cdna:SNAP chromosome:CEL140:I:10441166:10443353:-1 11/11 None
GENEFINDER00000001722 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:10441166:10443353:-1 11/11 None
Y106G6H.2b.6 ENSEMBL cdna:known chromosome:CEL140:I:10440826:10443892:-1 gene:Y106G6H.2 11/11 A 
Y106G6H.2b.2 ENSEMBL cdna:known chromosome:CEL140:I:10440826:10443943:-1 gene:Y106G6H.2 11/11 A 
Y106G6H.2b.1 ENSEMBL cdna:known chromosome:CEL140:I:10440937:10443943:-1 gene:Y106G6H.2 11/11 A 
Y106G6H.2b.4 ENSEMBL cdna:known chromosome:CEL140:I:10440946:10443943:-1 gene:Y106G6H.2 11/11 A 
Y106G6H.2b.5 ENSEMBL cdna:known chromosome:CEL140:I:10440946:10443908:-1 gene:Y106G6H.2 11/11 A 
Y106G6H.2b.3 ENSEMBL cdna:known chromosome:CEL140:I:10440946:10443943:-1 gene:Y106G6H.2 11/11 A 
Y106G6H.2a.5 ENSEMBL cdna:known chromosome:CEL140:I:10441166:10444060:-1 gene:Y106G6H.2 11/11 A 
Y106G6H.2a.1 ENSEMBL cdna:known chromosome:CEL140:I:10441166:10443998:-1 gene:Y106G6H.2 11/11 A 
Y106G6H.2a.3 ENSEMBL cdna:known chromosome:CEL140:I:10441166:10443514:-1 gene:Y106G6H.2 11/11 A 
Y106G6H.2a.2 ENSEMBL cdna:known chromosome:CEL140:I:10441166:10443944:-1 gene:Y106G6H.2 11/11 A 
Y106G6H.2a.4 ENSEMBL cdna:known chromosome:CEL140:I:10441166:10444111:-1 gene:Y106G6H.2 11/11 A 
Y106G6H.2c ENSEMBL cdna:known chromosome:CEL140:I:10441166:10443942:-1 gene:Y106G6H.2 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
chrI:10441096-10443284(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y106G6H.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAE54916 Hypothetical protein Y106G6H.2b [Caenorhabditis elegans] ref|NP_001021710.1| PolyA Binding protein family member (pab-1) [Caenorhabditis elegans] 0.0
blast CAA21572 Hypothetical protein Y106G6H.2a [Caenorhabditis elegans] ref|NP_001021709.1| PolyA Binding protein family member (pab-1) [Caenorhabditis elegans] 0.0
blast AAA65224 polyadenylate-binding protein 0.0
blast CAE58939 Hypothetical protein CBG02207 [Caenorhabditis briggsae] 0.0
blast CAE54917 Hypothetical protein Y106G6H.2c [Caenorhabditis elegans] ref|NP_001021711.1| PolyA Binding protein family member (pab-1) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR002004 EMBL-EBI Polyadenylate-binding protein/HECT-associated 2.8E-28
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 6.1E-22
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 9.9E-23
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 5.3E-22
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 5.3E-24
Pfam IPR002004 EMBL-EBI Polyadenylate-binding protein/HECT-associated 2.8E-28
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 9.9E-23
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 5.3E-22
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 5.3E-24
Pfam IPR002004 EMBL-EBI Polyadenylate-binding protein/HECT-associated 2.8E-28
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 5.3E-22
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 5.3E-24
Pfam IPR000504 EMBL-EBI RNA-binding region RNP-1 (RNA recognition motif) 2.1E-21
Sequence
Target Sequence 
>C. ELEGANS:194118_S_AT
gatgcaacagcagcgcaacttcgccggtggacaacagatggttcgcccaggaggtcgctg
gggaatgcaaaatcagtacccagtccaaaatcagtacatgatggctcaaggcccaggtgt
ctaccaaaaccgcatgggacgtccacagaaccaacaaggaggaccacgcggtccaccaca
gcagtacaatcaagtcgctcaaggaggcgtccgcatgcagggaccaccacgcacccaaaa
tcctggagtccaacagcaaaacgttccacgtccaccacagcaacaacagcagcaaagacc
agctccaaccggaccaaaggctccaccacagccatatcaggcataccagcaaagaccaca
aggaatcgttattggaggacaagagccactcacatctgcaatg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGCAACAGCAGCGCAACTTCGCC 43 413 1329 Antisense
CAACTTCGCCGGTGGACAACAGATG 384 187 1344 Antisense
GGTTCGCCCAGGAGGTCGCTGGGGA 437 505 1368 Antisense
CCCAGGTGTCTACCAAAACCGCATG 252 257 1440 Antisense
GCATGGGACGTCCACAGAACCAACA 30 311 1460 Antisense
GTCCACCACAGCAGTACAATCAAGT 184 477 1499 Antisense
CTCAAGGAGGCGTCCGCATGCAGGG 601 225 1526 Antisense
ACGCACCCAAAATCCTGGAGTCCAA 580 89 1557 Antisense
GTCCAACAGCAAAACGTTCCACGTC 690 469 1576 Antisense
CTCCACCACAGCCATATCAGGCATA 632 235 1649 Antisense
ACAAGAGCCACTCACATCTGCAATG 578 113 1707 Antisense
Sequence Source Affymetrix Proprietary Database