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[176756_s_at]

Description F56A6.1 /REP_DB=WormBase Gene ID /WP=CE25906 /GB=AAF99978.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 69      6grp_high1_10_10 > 96      4grp_highest_8_8 > 11      4grp_high_8_8 > 47      6grp_highest_nonorm > 97      6grp_total > 96      4grp_total > 48      6grp_highest_sub > In      6grp_high1_sub > In      6grp_total_sub > Increase      6grp_rule_based > S6      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 851
1 2 3 4 range
A 510.8
(-3)
P 		968.9
(0.2)
P 		1361.9
(3)
P 		773.4
(-1.1)
P 		851
B 590.5
(-3)
P 		963.7
(-0.1)
P 		1353
(3)
P 		728.2
(-1.9)
P 		763
C 546.1
(-3)
P 		915.9
(0.8)
P 		1127.1
(3)
P 		669.6
(-1.7)
P 		581
avr 549.1
(-3) 		949.5
(0.3) 		1280.7
(3) 		723.7
(-1.6) 		732

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1011
1 2 3 4 5 6 range
A 669.2
(-3)
P 		885.4
(-1.7)
P 		928.2
(-1.4)
P 		1166.6
(-0)
P 		1378.5
(1.3)
P 		1669.8
(3)
P 		1001
B 690.8
(-3)
P 		766.1
(-2.5)
P 		945.4
(-1.2)
P 		1132.2
(0.1)
P 		1318.9
(1.4)
P 		1543.1
(3)
P 		852
C 816.5
(-2.8)
P 		784.3
(-3)
P 		1172
(-0.4)
P 		1134.2
(-0.7)
P 		1491.1
(1.7)
P 		1679.7
(3)
P 		895
avr 725.5
(-3) 		811.9
(-2.4) 		1015.2
(-1.1) 		1144.3
(-0.2) 		1396.2
(1.4) 		1630.9
(3) 		905
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 280
1 2 3 4 range
A 186
(-1.2)
P 		210.3
(-0.6)
P 		356
(3)
P 		113.2
(-3)
P 		243
B 188.3
(-1.7)
P 		238
(0.1)
P 		313.5
(3)
P 		155.2
(-3)
P 		158
C 180.8
(-1.5)
P 		263.3
(0.2)
P 		392.8
(3)
P 		112.9
(-3)
P 		280
avr 185
(-1.5) 		237.2
(-0.1) 		354.1
(3) 		127.1
(-3) 		227

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 452
1 2 3 4 5 6 range
A 123.4
(-3)
P 		314.9
(0.9)
P 		202.1
(-1.4)
P 		295.9
(0.5)
P 		416
(3)
P 		406.5
(2.8)
P 		293
B 240.4
(-2.8)
P 		255
(-2.6)
P 		229.6
(-3)
P 		299.9
(-1.8)
P 		535.8
(2.3)
P 		575.4
(3)
P 		346
C 302.7
(-1.7)
P 		239.3
(-2.8)
P 		298.3
(-1.7)
P 		228.1
(-3)
P 		482.5
(1.6)
P 		562.3
(3)
P 		334
avr 222.2
(-3) 		269.7
(-2) 		243.3
(-2.6) 		274.6
(-1.9) 		478.1
(2.2) 		514.7
(3) 		293
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 176756_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2582
Sequence Type Exemplar sequence
Representative Public ID F56A6.1 NCBI
Target Description F56A6.1 /REP_DB=WormBase Gene ID /WP=CE25906 /GB=AAF99978.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=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_058357(11), NM_182059(11), NM_170849(11), NM_058922(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058357 NCBI Caenorhabditis elegans F56A6.1a (F56A6.1) mRNA, complete cds. 11/11 None
NM_182059 NCBI Caenorhabditis elegans F56A6.1b (F56A6.1) mRNA, complete cds. 11/11 None
NM_170849 NCBI Caenorhabditis elegans PAZ/PIWI domain-containing family member (ppw-1) (ppw-1) mRNA, complete cds. 11/11 None
NM_058922 NCBI Caenorhabditis elegans PAZ/PIWI domain-containing family member (ppw-1) (ppw-1) mRNA, complete cds. 11/11 None
SNAP00000003655 ENSEMBL cdna:SNAP chromosome:CEL140:I:4186564:4193025:1 11/11 None
GENEFINDER00000003669 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4186564:4189761:1 11/11 None
SNAP00000032533 ENSEMBL cdna:SNAP chromosome:CEL140:I:619311:637714:1 11/11 None
GENEFINDER00000032545 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:619435:621314:1 11/11 None
F56A6.1b ENSEMBL cdna:known chromosome:CEL140:I:618210:621424:1 gene:F56A6.1 11/11 None
F56A6.1a ENSEMBL cdna:known chromosome:CEL140:I:618210:621466:1 gene:F56A6.1 11/11 None
C18E3.7a ENSEMBL cdna:known chromosome:CEL140:I:4185062:4190243:1 gene:C18E3.7 11/11 None
C18E3.7c.1 ENSEMBL cdna:known chromosome:CEL140:I:4186549:4189761:1 gene:C18E3.7 11/11 None
C18E3.7c.2 ENSEMBL cdna:known chromosome:CEL140:I:4186551:4189761:1 gene:C18E3.7 11/11 None
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
172013 3 2 NM_058922 176756_s_at (11)
NM_170849 176756_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:618209-621314(+) 100.0 100.0
chrI:4186563-4189761(+) 99.4 99.4
Public Domain and Genome References
Ensembl F56A6.1
C18E3.7
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF99978 Hypothetical protein F56A6.1a [Caenorhabditis elegans] ref|NP_490758.1| F56A6.1a [Caenorhabditis elegans] 0.0
blast AAO38667 Paz/piwi domain-containing protein 1, isoform c [Caenorhabditis elegans] ref|NP_491323.2| PAZ/PIWI domain-containing family member (ppw-1) [Caenorhabditis elegans] 0.0
blast AAB52946 Paz/piwi domain-containing protein 1, isoform a [Caenorhabditis elegans] ref|NP_740835.1| PAZ/PIWI domain-containing family member (ppw-1) [Caenorhabditis elegans] 0.0
blast AAO38635 Hypothetical protein F56A6.1b [Caenorhabditis elegans] ref|NP_871859.1| F56A6.1b [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003100 EMBL-EBI Argonaute and Dicer protein, PAZ 4.8E-52
Pfam IPR003165 EMBL-EBI Stem cell self-renewal protein Piwi 1.0E-126
Pfam IPR003100 EMBL-EBI Argonaute and Dicer protein, PAZ 4.8E-52
Pfam IPR003165 EMBL-EBI Stem cell self-renewal protein Piwi 1.0E-126
Pfam IPR001837 EMBL-EBI CAP protein 4.8E-117
Pfam IPR003100 EMBL-EBI Argonaute and Dicer protein, PAZ 4.8E-52
Pfam IPR003165 EMBL-EBI Stem cell self-renewal protein Piwi 1.0E-126
Pfam IPR005024 EMBL-EBI Snf7 8.6E-56
Pfam IPR003100 EMBL-EBI Argonaute and Dicer protein, PAZ 2.9E-46
Pfam IPR003165 EMBL-EBI Stem cell self-renewal protein Piwi 1.0E-126
Pfam IPR003100 EMBL-EBI Argonaute and Dicer protein, PAZ 7.0E-32
Pfam IPR003165 EMBL-EBI Stem cell self-renewal protein Piwi 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:176756_S_AT
gaaggaggcgtgcatggcattccaaaaggagggaaccccgccattcagaccacacatcac
catcatcgcctcatcaaaggctcacaacgagcgtctgtacaaatccgacaagggacgtat
tgttaatttggagccgggtacggtcgtggaccataccattgtgagcaatgtctacactga
gtggtatcatgcctcagctgttgctcgccaaggaactgcaaaggctaccaagttcactct
catcttcaccactaaagcaggcccacaagctgagccattgtggcatctcgagcaattgac
caatgatctttgctacgatcatcagattgtcttccatccggtcggacttcccgtcccact
gtacattgctgatcgttacagtcaacgtggagcaatggttcttgccgccaatcaaggtcc
aatctacaatgaaggacaaatcgatctcgcggctac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGGAGGCGTGCATGGCATTCCAA 148 335 2163 Antisense
GGTCGTGGACCATACCATTGTGAGC 46 501 2304 Antisense
CAAAGGCTACCAAGTTCACTCTCAT 642 191 2381 Antisense
CTCTCATCTTCACCACTAAAGCAGG 692 227 2399 Antisense
AAAGCAGGCCCACAAGCTGAGCCAT 447 123 2416 Antisense
GCTGAGCCATTGTGGCATCTCGAGC 191 295 2431 Antisense
CGATCATCAGATTGTCTTCCATCCG 81 249 2478 Antisense
TCCCACTGTACATTGCTGATCGTTA 277 599 2516 Antisense
ACGTGGAGCAATGGTTCTTGCCGCC 107 95 2547 Antisense
TGCCGCCAATCAAGGTCCAATCTAC 536 585 2565 Antisense
AAGGACAAATCGATCTCGCGGCTAC 55 161 2594 Antisense
Sequence Source Affymetrix Proprietary Database