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[187616_s_at]

Description F56A8.3 /REP_DB=WormBase Gene ID /WP=CE16123 /CHR=3 /FEA=Sanger Annotation /DEF=(HINXTON) TR:O45574 protein_id:CAB05743.1
Cluster 6grp_highest_10_10 > 02      6grp_high1_10_10 > 10      4grp_highest_8_8 > 16      4grp_high_8_8 > 61      6grp_highest_nonorm > 66      6grp_total > 32      4grp_total > 59      6grp_total_sub > Hat      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1673
1 2 3 4 range
A 1099.4
(-0.2)
P 		1477
(1.2)
P 		1939.6
(3)
P 		386.7
(-3)
P 		1553
B 1449.4
(1.4)
P 		1681.9
(2.4)
P 		1807.7
(3)
P 		481.7
(-3)
P 		1326
C 1312.2
(0.2)
P 		2059.8
(3)
P 		1612.9
(1.3)
P 		438.1
(-3)
P 		1622
avr 1287
(0.8) 		1739.6
(2.8) 		1786.7
(3) 		435.5
(-3) 		1351

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 882
1 2 3 4 5 6 range
A 1708.8
(3)
P 		1429.9
(0.9)
P 		1462.3
(1.1)
P 		1543.2
(1.7)
P 		1234.6
(-0.6)
P 		924
(-3)
P 		785
B 1635.8
(3)
P 		1234.9
(-1.1)
P 		1631.6
(3)
P 		1610.5
(2.7)
P 		1256.5
(-0.9)
P 		1053.2
(-3)
P 		583
C 1805.5
(3)
P 		1198.6
(-1.3)
P 		1703
(2.3)
P 		1435.2
(0.4)
P 		1471.2
(0.6)
P 		953.2
(-3)
P 		852
avr 1716.7
(3) 		1287.8
(-0.5) 		1599
(2) 		1529.6
(1.5) 		1320.8
(-0.2) 		976.8
(-3) 		740
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 536
1 2 3 4 range
A 400.3
(1.6)
P 		320.6
(0.5)
P 		507
(3)
P 		56.6
(-3)
P 		450
B 462.2
(3)
P 		415.4
(2.2)
P 		418.9
(2.3)
P 		102.6
(-3)
P 		360
C 434.4
(1.2)
P 		592.2
(3)
P 		562.2
(2.7)
P 		73.9
(-3)
P 		518
avr 432.3
(2.1) 		442.7
(2.2) 		496
(3) 		77.7
(-3) 		418

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 444
1 2 3 4 5 6 range
A 315
(-1.1)
P 		508.5
(3)
P 		318.5
(-1)
P 		391.4
(0.5)
P 		372.6
(0.1)
P 		225
(-3)
P 		284
B 569.2
(3)
P 		411.1
(-2.4)
P 		396.2
(-2.9)
P 		426.6
(-1.8)
P 		510.5
(1)
P 		392.7
(-3)
P 		177
C 669.2
(3)
P 		365.7
(-1.8)
P 		433.4
(-0.7)
P 		288.6
(-3)
P 		476
(-0)
P 		319.1
(-2.5)
P 		381
avr 517.8
(3) 		428.4
(0.4) 		382.7
(-0.9) 		368.9
(-1.3) 		453
(1.1) 		312.3
(-3) 		206
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187616_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6371
Sequence Type Exemplar sequence
Representative Public ID F56A8.3 NCBI
Target Description F56A8.3 /REP_DB=WormBase Gene ID /WP=CE16123 /CHR=3 /FEA=Sanger Annotation /DEF=(HINXTON) TR:O45574 protein_id:CAB05743.1
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_067329(11), NM_067330(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067329 NCBI Caenorhabditis elegans F56A8.3a (F56A8.3) mRNA, complete cds. 11/11 A 
NM_067330 NCBI Caenorhabditis elegans F56A8.3b (F56A8.3) mRNA, complete cds. 11/11 None
GENEFINDER00000043517 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:13256420:13262052:1 11/11 None
SNAP00000043511 ENSEMBL cdna:SNAP chromosome:CEL140:III:13259117:13262052:1 11/11 None
F56A8.3a.3 ENSEMBL cdna:known chromosome:CEL140:III:13256395:13262395:1 gene:F56A8.3 11/11 None
F56A8.3a.1 ENSEMBL cdna:known chromosome:CEL140:III:13256396:13262395:1 gene:F56A8.3 11/11 A 
F56A8.3a.2 ENSEMBL cdna:known chromosome:CEL140:III:13256396:13262399:1 gene:F56A8.3 11/11 A 
F56A8.3b.1 ENSEMBL cdna:known chromosome:CEL140:III:13259841:13262052:1 gene:F56A8.3 11/11 None
F56A8.3b.2 ENSEMBL cdna:known chromosome:CEL140:III:13260107:13262052:1 gene:F56A8.3 11/11 None
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
chrIII:13260144-13262048(+) 99.74 100.0
Public Domain and Genome References
Ensembl F56A8.3
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAC42304 Hypothetical protein F56A8.3a [Caenorhabditis elegans] ref|NP_499730.1| F56A8.3a [Caenorhabditis elegans] 0.0
blast CAE60062 Hypothetical protein CBG03577 [Caenorhabditis briggsae] 1.0E-174
blast CAB05743 Hypothetical protein F56A8.3b [Caenorhabditis elegans] ref|NP_499731.1| F56A8.3b [Caenorhabditis elegans] 1.0E-146
Protein Domains
Database ID Description E-Value
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 4.0E-4
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 0.041
Pfam IPR001611 EMBL-EBI Leucine-rich repeat 8.5E-6
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499730.1 1 244-266
NP_499731.1 1 54-76
F56A8.3a.3 1 244-266
F56A8.3a.1 1 244-266
F56A8.3a.2 1 244-266
F56A8.3b.1 1 54-76
F56A8.3b.2 1 54-76
GENEFINDER00000043517 3 188-210,242-264,342-364
SNAP00000043511 1 57-79
Sequence
Target Sequence 
>C. ELEGANS:187616_S_AT
tctacctgacaatcgtcgtcgcaacatcgagcaccgttgcaatcgcgctcgactgcaagg
gcctcggatcaccgattcctggaactgctccactgtgcaaggatcttacattgatggcga
ctggaaacaaaccatctgccgcatttgttaagaacaccagagccgcctacggatcagtct
tgcaaggatatcacaaccaagtcaagccacacgttgctccagttcaagccgctgtcagca
aaaaatggaagcagtttgccaagtctgatgttggaggaaaagtcgaaaagattgctatga
atattcacgcttggattgtggataaatgggtcaaaattcagagattcgttcaacagacgt
ggaacaacgttgcggcttggtggaagaagaacgggcaaaaacagtttggtccagctcttg
aaggattcgtacttggagtcaagatggttttccaagtcgttgctgatgctc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TCTACCTGACAATCGTCGTCGCAAC 696 613 197 Antisense
TCGAGCACCGTTGCAATCGCGCTCG 260 603 223 Antisense
GGATCACCGATTCCTGGAACTGCTC 646 511 262 Antisense
GAACTGCTCCACTGTGCAAGGATCT 417 349 278 Antisense
CAAACCATCTGCCGCATTTGTTAAG 629 191 324 Antisense
TTGTTAAGAACACCAGAGCCGCCTA 621 707 341 Antisense
CCGCCTACGGATCAGTCTTGCAAGG 512 261 359 Antisense
AACCAAGTCAAGCCACACGTTGCTC 99 149 391 Antisense
TCCAGTTCAAGCCGCTGTCAGCAAA 685 589 414 Antisense
AACAGTTTGGTCCAGCTCTTGAAGG 362 137 596 Antisense
GTTTTCCAAGTCGTTGCTGATGCTC 123 449 643 Antisense
Sequence Source Affymetrix Proprietary Database