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[173311_s_at]

Description CEK086G6R_rc /REP_DB=TREMBL Accession /GB=D64679 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk86g6 : 3prime end, single read.
Cluster 6grp_total > 94      4grp_total > 02      6grp_cgc > 87      6grp_cgc_sub > 05      6grp_total_sub > Hat      6grp_rule_based > S5      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 87
1 2 3 4 range
A 3.7
(-3)
A 		8.5
(-2.6)
A 		3.5
(-3)
A 		89.1
(3)
A 		86
B 4
(-3)
A 		6.8
(-2.8)
A 		4.8
(-2.9)
A 		81.9
(3)
A 		78
C 4.1
(-3)
A 		5.1
(-2.9)
A 		4.1
(-3)
A 		90.2
(3)
A 		86
avr 3.9
(-3) 		6.8
(-2.8) 		4.1
(-3) 		87.1
(3) 		83

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20661
1 2 3 4 5 6 range
A 4.8
(-3)
A 		6.5
(-3)
A 		90.7
(-3)
A 		17850.8
(2.8)
P 		18546.1
(3)
P 		5783
(-1.1)
P 		18541
B 5.7
(-3)
A 		13.1
(-3)
A 		139.6
(-3)
A 		14473.9
(1.9)
P 		17793
(3)
P 		5369.3
(-1.2)
P 		17787
C 10.6
(-3)
A 		16.6
(-3)
A 		133.6
(-3)
A 		15719.9
(1.6)
P 		20665.3
(3)
P 		4689.4
(-1.6)
P 		20655
avr 7
(-3) 		12.1
(-3) 		121.3
(-3) 		16014.9
(2.1) 		19001.5
(3) 		5280.6
(-1.3) 		18995
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 1.3
(-2.8)
A 		1.8
(-2.6)
A 		0.9
(-3)
A 		13
(3)
A 		12
B 1.3
(-2.9)
A 		1.7
(-2.8)
A 		1.1
(-3)
A 		17.5
(3)
A 		16
C 1.4
(-3)
A 		1.5
(-3)
A 		1.4
(-3)
A 		15.2
(3)
A 		14
avr 1.3
(-2.9) 		1.7
(-2.7) 		1.1
(-3) 		15.2
(3) 		14

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7228
1 2 3 4 5 6 range
A 0.9
(-3)
A 		2.3
(-3)
A 		19.8
(-3)
A 		4527.4
(1.9)
P 		5596.4
(3)
P 		1408
(-1.5)
P 		5596
B 2
(-3)
A 		4.4
(-3)
A 		33.9
(-3)
A 		3833.6
(0.2)
P 		7229.1
(3)
P 		2002.2
(-1.3)
P 		7227
C 3.9
(-3)
A 		5.1
(-3)
A 		34
(-3)
A 		3161.3
(-0.2)
P 		6687
(3)
P 		1569.8
(-1.6)
P 		6683
avr 2.3
(-3) 		3.9
(-3) 		29.2
(-3) 		3840.8
(0.5) 		6504.2
(3) 		1660
(-1.5) 		6502
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173311_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.28062
Sequence Type Exemplar sequence
Representative Public ID CEK086G6R NCBI
Target Description CEK086G6R_rc /REP_DB=TREMBL Accession /GB=D64679 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk86g6 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
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_067766(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067766 NCBI Caenorhabditis elegans GRound-Like (grd related) family member (grl-20) (grl-20) mRNA, complete cds. 11/11 A 
SNAP00000034538 ENSEMBL cdna:SNAP chromosome:CEL140:IV:2126328:2127675:-1 11/11 None
GENEFINDER00000034544 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:2126328:2128983:-1 11/11 None
C23H5.9 ENSEMBL cdna:known chromosome:CEL140:IV:2126165:2128851:-1 gene:C23H5.9 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
chrIV:2126212-2126452(-) 58.5 65.42
Public Domain and Genome References
Gene Title
Gene Symbol grl-20
Ensembl C23H5.9
Entrez Gene 177009 Entrez gene
SwissProt O61832 EMBL-EBI
WormBase CE17442 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAC17537 Ground-like (grd related) protein 20 [Caenorhabditis elegans] ref|NP_500167.1| GRound-Like (grd related) family member (grl-20) [Caenorhabditis elegans] 5.0E-51
blast AAC17537 Ground-like (grd related) protein 20 [Caenorhabditis elegans] ref|NP_500167.1| GRound-Like (grd related) family member (grl-20) [Caenorhabditis elegans] 7.0E-51
blast CAE65562 Hypothetical protein CBG10552 [Caenorhabditis briggsae] 6.0E-47
blast AAC17537 Ground-like (grd related) protein 20 [Caenorhabditis elegans] ref|NP_500167.1| GRound-Like (grd related) family member (grl-20) [Caenorhabditis elegans] 6.0E-47
blast CAE65562 Hypothetical protein CBG10552 [Caenorhabditis briggsae] 5.0E-43
Protein Domains
Database ID Description E-Value
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 1.2E-19
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 1.2E-19
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 4.0E-8
Sequence
Target Sequence 
>C. ELEGANS:173311_S_AT
atcgtcgccagcctcaaggagaaatacgctggagtcagatacctcgtcacctgcatcgaa
ggagatcacgatttcgcaagctcctcgaccgactactgtgccgacggaagccaacagcaa
acatgcattgtcgcaaaagccaccgatga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATCGTCGCCAGCCTCAAGGAGAAAT 532 35 44 Antisense
GTCGCCAGCCTCAAGGAGAAATACG 146 475 47 Antisense
GAAATACGCTGGAGTCAGATACCTC 461 363 64 Antisense
ACGCTGGAGTCAGATACCTCGTCAC 664 87 69 Antisense
CCTCGTCACCTGCATCGAAGGAGAT 312 267 85 Antisense
GTCACCTGCATCGAAGGAGATCACG 341 465 89 Antisense
GGAGATCACGATTTCGCAAGCTCCT 24 519 104 Antisense
GACTACTGTGCCGACGGAAGCCAAC 512 373 134 Antisense
GTGCCGACGGAAGCCAACAGCAAAC 192 479 141 Antisense
GCCAACAGCAAACATGCATTGTCGC 148 279 153 Antisense
GCATTGTCGCAAAAGCCACCGATGA 366 307 168 Antisense
Sequence Source Affymetrix Proprietary Database