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[180341_s_at]

Description C23H5.9 /REP_DB=WormBase Gene ID /WP=CE17442 /TR=O61832 /GB=AAC17537.1 /SUBMIT=ST.LOUIS /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_total > 83      4grp_total > 11      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 95
1 2 3 4 range
A 65
(-1.8)
A 		49.7
(-3)
A 		75.5
(-1)
A 		127.2
(3)
A 		78
B 62.3
(-0.6)
A 		53.8
(-3)
A 		55.7
(-2.5)
A 		75.3
(3)
A 		22
C 53.9
(-1.5)
A 		85
(0.8)
A 		32.2
(-3)
A 		116.3
(3)
A 		84
avr 60.4
(-2.3) 		62.8
(-2) 		54.5
(-3) 		106.3
(3) 		52

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 17519
1 2 3 4 5 6 range
A 81.6
(-3)
A 		37
(-3)
A 		110
(-3)
A 		13216.1
(2.3)
P 		15073.2
(3)
P 		3779.8
(-1.5)
P 		15036
B 60.7
(-3)
A 		71.7
(-3)
A 		140.8
(-3)
A 		10367.2
(1.8)
P 		12998
(3)
P 		3395.8
(-1.5)
P 		12937
C 44.1
(-3)
A 		67.1
(-3)
A 		144.8
(-3)
A 		11901.8
(1.1)
P 		17556
(3)
P 		3163.3
(-1.9)
P 		17512
avr 62.1
(-3) 		58.6
(-3) 		131.9
(-3) 		11828.4
(1.7) 		15209.1
(3) 		3446.3
(-1.7) 		15151
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14
1 2 3 4 range
A 23.7
(3)
A 		10.8
(-3)
A 		19.7
(1.1)
A 		18.6
(0.6)
A 		13
B 19.9
(3)
A 		13.3
(-2.7)
A 		12.9
(-3)
A 		16
(-0.3)
A 		7
C 17.9
(0)
A 		24.4
(3)
A 		11.2
(-3)
A 		19.6
(0.8)
A 		13
avr 20.5
(3) 		16.2
(-1.4) 		14.6
(-3) 		18.1
(0.6) 		6

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 5668
1 2 3 4 5 6 range
A 15
(-3)
A 		13.2
(-3)
A 		23.9
(-3)
A 		3351.9
(1.4)
P 		4548.4
(3)
P 		920.3
(-1.8)
P 		4535
B 21.1
(-3)
A 		23.9
(-3)
A 		34.2
(-3)
A 		2745.9
(0.1)
P 		5280.9
(3)
P 		1266.3
(-1.6)
P 		5260
C 16.3
(-3)
A 		20.5
(-3)
A 		36.9
(-3)
A 		2393.5
(-0.5)
P 		5680.9
(3)
P 		1059
(-1.9)
P 		5665
avr 17.5
(-3) 		19.2
(-3) 		31.7
(-3) 		2830.4
(0.3) 		5170.1
(3) 		1081.9
(-1.8) 		5153
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 180341_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11230
Sequence Type Exemplar sequence
Representative Public ID C23H5.9 NCBI
Target Description C23H5.9 /REP_DB=WormBase Gene ID /WP=CE17442 /TR=O61832 /GB=AAC17537.1 /SUBMIT=ST.LOUIS /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_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:2126333-2127682(-) 81.5 99.59
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:180341_S_AT
agttctggtagttgtctcgttaatcgtcgtctcgacacaagcgttcctcttcccgggagg
cggaggcggcgggggctgcggaggcggatgtggaggtggatgcgggggcggaggaggtgg
aggatgccttccgaccctcggatgctccgtcatctccttcaacgtcccaacattgaagct
tccaccaccaccaccaccaccatgcggcggaggatgtggatgtggaggaagaaagaagag
agctgccagtgaagactcaaaatgcactgatccagagctcagaaagatcattttgaatgg
agtccgcaccaccacatccgagtcccgagacaacatcgtc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AGTTCTGGTAGTTGTCTCGTTAATC 432 63 18 Antisense
GGTAGTTGTCTCGTTAATCGTCGTC 673 503 24 Antisense
TTGTCTCGTTAATCGTCGTCTCGAC 387 699 29 Antisense
AATCGTCGTCTCGACACAAGCGTTC 355 169 39 Antisense
CTCCTTCAACGTCCCAACATTGAAG 479 233 171 Antisense
AACGTCCCAACATTGAAGCTTCCAC 332 143 178 Antisense
GAAGAGAGCTGCCAGTGAAGACTCA 308 339 252 Antisense
GAAGACTCAAAATGCACTGATCCAG 541 339 268 Antisense
AATGCACTGATCCAGAGCTCAGAAA 9 167 278 Antisense
ACATCCGAGTCCCGAGACAACATCG 393 103 331 Antisense
ATCCGAGTCCCGAGACAACATCGTC 360 37 333 Antisense
Sequence Source Affymetrix Proprietary Database