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[174670_s_at]

Description CEK010E7R_rc /REP_DB=TREMBL Accession /GB=D26672 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk10e7 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 31      6grp_high1_10_10 > 03      4grp_highest_8_8 > 23      4grp_high_8_8 > 05      6grp_highest_nonorm > 05      6grp_total > 24      4grp_total > 03      6grp_highest_sub > De      6grp_cgc > 31      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 7101
1 2 3 4 range
A 11566.5
(-1.9)
P 		10504.5
(-3)
P 		10510.4
(-3)
P 		16572.5
(3)
P 		6068
B 10768.5
(-2.1)
P 		10044
(-2.9)
P 		9974.6
(-3)
P 		15286.9
(3)
P 		5312
C 10774.8
(-2.6)
P 		10364.8
(-3)
P 		10443
(-2.9)
P 		17075.8
(3)
P 		6711
avr 11036.6
(-2.3) 		10304.4
(-3) 		10309.3
(-3) 		16311.7
(3) 		6007

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 3856
1 2 3 4 5 6 range
A 5641.5
(-2.7)
P 		8413.8
(3)
P 		6903.1
(-0.1)
P 		6625.4
(-0.7)
P 		5513.6
(-3)
P 		6814.9
(-0.3)
P 		2900
B 8540.2
(3)
P 		7207
(0.3)
P 		6968.8
(-0.2)
P 		6050.7
(-2.1)
P 		5692.3
(-2.8)
P 		5606.5
(-3)
P 		2934
C 8965.1
(3)
P 		6275.7
(-1.2)
P 		7583.4
(0.9)
P 		5887.1
(-1.8)
P 		7603.6
(0.9)
P 		5109
(-3)
P 		3856
avr 7715.6
(3) 		7298.8
(1.7) 		7151.8
(1.2) 		6187.7
(-1.9) 		6269.8
(-1.6) 		5843.5
(-3) 		1872
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1931
1 2 3 4 range
A 4211.4
(3)
P 		2280.2
(-3)
P 		2747.6
(-1.5)
P 		2425.9
(-2.5)
P 		1931
B 3434
(3)
P 		2480.6
(-2.1)
P 		2311.3
(-3)
P 		3257.6
(2.1)
P 		1123
C 3566.8
(2.4)
P 		2979.9
(-2.2)
P 		3639.7
(3)
P 		2879.3
(-3)
P 		760
avr 3737.4
(3) 		2580.2
(-3) 		2899.5
(-1.3) 		2854.3
(-1.6) 		1157

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 2283
1 2 3 4 5 6 range
A 1040
(-3)
P 		2992.4
(3)
P 		1503.4
(-1.6)
P 		1680.4
(-1)
P 		1663.8
(-1.1)
P 		1659.2
(-1.1)
P 		1952
B 2971.6
(3)
P 		2398.9
(0.5)
P 		1692.2
(-2.6)
P 		1602.6
(-3)
P 		2312.7
(0.1)
P 		2090.6
(-0.9)
P 		1369
C 3323
(3)
P 		1914.9
(-0.9)
P 		1930.1
(-0.9)
P 		1183.9
(-3)
P 		2460.4
(0.6)
P 		1710.3
(-1.5)
P 		2139
avr 2444.9
(3) 		2435.4
(2.9) 		1708.6
(-1.6) 		1489
(-3) 		2145.6
(1.1) 		1820
(-0.9) 		956
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 174670_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20296
Sequence Type Exemplar sequence
Representative Public ID CEK010E7R NCBI
Target Description CEK010E7R_rc /REP_DB=TREMBL Accession /GB=D26672 /CHR=1 /FEA=Genomic Cluster /DEF=C.elegans cDNA clone yk10e7 : 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,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:10440927-10441376(-) 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:174670_S_AT
gcaaaagcaacttcttggtgagcgtatctacgctctcattgagaaactctacccgggaca
caaggacgcaggaaaaatcacaggaatgatgctcgaaatcgacaattccgagttgatcat
gatgcttcaagatagtgaattgttccgctcgaaggtcgacgaagctgcatcggttctcgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAAAAGCAACTTCTTGGTGAGCGT 276 319 41 Antisense
GCAACTTCTTGGTGAGCGTATCTAC 631 319 47 Antisense
GCGTATCTACGCTCTCATTGAGAAA 410 291 62 Antisense
CATTGAGAAACTCTACCCGGGACAC 309 191 77 Antisense
TGAGAAACTCTACCCGGGACACAAG 416 567 80 Antisense
CTCTACCCGGGACACAAGGACGCAG 524 227 87 Antisense
TACCCGGGACACAAGGACGCAGGAA 276 649 90 Antisense
GGACGCAGGAAAAATCACAGGAATG 575 523 104 Antisense
GAAAAATCACAGGAATGATGCTCGA 528 355 112 Antisense
TGATGCTCGAAATCGACAATTCCGA 626 565 127 Antisense
TCGACGAAGCTGCATCGGTTCTCGT 97 603 196 Antisense
Sequence Source Affymetrix Proprietary Database