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[186520_at]

Description Y116A8C.20 /REP_DB=WormBase Gene ID /WP=CE23329 /TR=Q9U2V1 /GB=CAB55126.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 56      4grp_total > 17      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 33
1 2 3 4 range
A 2.1
(-3)
A 		13
(3)
A 		8.8
(0.7)
A 		6
(-0.9)
A 		11
B 2.9
(-0.9)
A 		2.7
(-1.5)
A 		2.2
(-3)
A 		4.2
(3)
A 		2
C 3.3
(-3)
A 		6
(-2.5)
A 		5
(-2.7)
A 		35.1
(3)
A 		32
avr 2.8
(-3) 		7.2
(-0.9) 		5.3
(-1.8) 		15.1
(3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 13
1 2 3 4 5 6 range
A 3.9
(-0.9)
A 		4
(-0.7)
A 		2.9
(-3)
A 		4
(-0.7)
A 		4.6
(0.5)
A 		5.8
(3)
A 		3
B 3.3
(-0.9)
A 		5.9
(1.8)
A 		1.3
(-3)
A 		2.4
(-1.8)
A 		2.4
(-1.8)
A 		7
(3)
A 		6
C 2
(-3)
A 		13.3
(2.7)
A 		8.2
(0.1)
A 		8.9
(0.5)
A 		4.2
(-1.9)
A 		13.9
(3)
A 		12
avr 3.1
(-3) 		7.7
(1.8) 		4.1
(-2) 		5.1
(-0.9) 		3.7
(-2.4) 		8.9
(3) 		6
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5
1 2 3 4 range
A 0.8
(-3)
A 		2.8
(3)
A 		2.3
(1.5)
A 		0.9
(-2.7)
A 		2
B 0.9
(3)
A 		0.7
(-0)
A 		0.5
(-3)
A 		0.9
(3)
A 		0
C 1.1
(-3)
A 		1.7
(-2.3)
A 		1.7
(-2.3)
A 		5.9
(3)
A 		5
avr 0.9
(-3) 		1.7
(-0.2) 		1.5
(-0.9) 		2.6
(3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4
1 2 3 4 5 6 range
A 0.7
(-2.3)
A 		1.4
(3)
A 		0.6
(-3)
A 		1
(0)
A 		1.4
(3)
A 		1.4
(3)
A 		1
B 1.1
(-0.9)
A 		2
(1.4)
A 		0.3
(-3)
A 		0.6
(-2.2)
A 		1
(-1.2)
A 		2.6
(3)
A 		2
C 0.7
(-3)
A 		4.1
(2.2)
A 		2.1
(-0.8)
A 		1.8
(-1.3)
A 		1.4
(-1.9)
A 		4.6
(3)
A 		4
avr 0.8
(-3) 		2.5
(1.9) 		1
(-2.4) 		1.1
(-2.1) 		1.3
(-1.6) 		2.9
(3) 		2
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186520_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8384
Sequence Type Exemplar sequence
Representative Public ID Y116A8C.20 NCBI
Target Description Y116A8C.20 /REP_DB=WormBase Gene ID /WP=CE23329 /TR=Q9U2V1 /GB=CAB55126.1 /SUBMIT=HINXTON /CHR=4 /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_070619(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070619 NCBI Caenorhabditis elegans Y116A8C.20 (Y116A8C.20) mRNA, complete cds. 11/11 None
SNAP00000004091 ENSEMBL cdna:SNAP chromosome:CEL140:IV:17040875:17041480:1 11/11 None
GENEFINDER00000004187 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:17040875:17041480:1 11/11 None
Y116A8C.20 ENSEMBL cdna:known chromosome:CEL140:IV:17040870:17041480:1 gene:Y116A8C.20 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
chrIV:17040880-17041486(+) 89.93 100.0
Public Domain and Genome References
Gene Title
Ensembl Y116A8C.20
Entrez Gene 178478 Entrez gene
SwissProt Q9U2V1 EMBL-EBI
WormBase CE23329 Wormbase
Functional Annotations
Gene Ontology
GO Molecular Function (view graph)
ID Description Evidence Links
3676 nucleic acid binding inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB55126 Hypothetical protein Y116A8C.20 [Caenorhabditis elegans] ref|NP_503020.1| Y116A8C.20 [Caenorhabditis elegans] 1.0E-107
blast CAB55123 Hypothetical protein Y116A8C.17 [Caenorhabditis elegans] ref|NP_503017.1| Y116A8C.17 [Caenorhabditis elegans] 9.0E-72
blast CAB05147 Hypothetical protein C35D6.4 [Caenorhabditis elegans] ref|NP_502949.1| C35D6.4 [Caenorhabditis elegans] 5.0E-61
Protein Domains
Database ID Description E-Value
Pfam IPR000571 EMBL-EBI Zn-finger, C-x8-C-x5-C-x3-H type 6.2E-11
Pfam IPR000571 EMBL-EBI Zn-finger, C-x8-C-x5-C-x3-H type 1.0E-12
Sequence
Target Sequence 
>C. ELEGANS:186520_AT
aaccaatcaatcgaataccctctccaacttcattctgacgtgtgcattccctgctggagc
tcctgtaaccaattaccctccatccctttcacatacatcatctccaggatcttccgtata
cgaagcttctacgaaaacggaagcagtgcacaaattggagtcatatcaattacaggccag
cagagatccgtgcacaattcccgacgagcttcgtgaagaaatgaagagaatgaaaagaca
ggaaggagcattcaagacagctctatgtctttctcacaaacgtggtaaaacatgcattta
cggagaacaatgtaaatttgctcacggtgttcatgagctcaggtgtcaacaggcaaagaa
aaaccatcgcaactacaaaacagtactttgcgataaattcacgacaactggatattgcaa
gtacggaatcaggtgtcagttcatccacagatccatggacgcaactaatgtaaccagacc
aatagacacagcggatttcaagcttgacgttcaatcggacctctctcgtgcatttgctct
ggattcttcaagcttcttgc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AACCAATCAATCGAATACCCTCTCC 224 149 27 Antisense
AACTTCATTCTGACGTGTGCATTCC 551 139 52 Antisense
TACATCATCTCCAGGATCTTCCGTA 414 643 120 Antisense
GATCTTCCGTATACGAAGCTTCTAC 695 419 134 Antisense
TACAGGCCAGCAGAGATCCGTGCAC 41 645 197 Antisense
AGCTCTATGTCTTTCTCACAAACGT 66 81 285 Antisense
TCACGGTGTTCATGAGCTCAGGTGT 507 623 348 Antisense
GTTCATCCACAGATCCATGGACGCA 343 445 465 Antisense
GGACGCAACTAATGTAACCAGACCA 498 521 483 Antisense
GACACAGCGGATTTCAAGCTTGACG 166 367 511 Antisense
GCTCTGGATTCTTCAAGCTTCTTGC 531 299 562 Antisense
Sequence Source Affymetrix Proprietary Database