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[188028_at]

Description T18H9.1 /REP_DB=WormBase Gene ID /WP=CE04970 /GEN=grd-6 /TR=Q22551 /GB=AAA83334.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 44      6grp_total > 0      4grp_total > 49      6grp_total_sub > Hat      6grp_cgc > 54      6grp_high1_sub > 02      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 2399
1 2 3 4 range
A 11.6
(-3)
A 		1860.8
(1.7)
P 		2371.8
(3)
P 		61
(-2.9)
A 		2360
B 4.8
(-3)
A 		2259.6
(2.6)
P 		2403.7
(3)
P 		13.3
(-3)
A 		2399
C 14.8
(-3)
A 		2266.4
(2.8)
P 		2336.6
(3)
P 		37.2
(-2.9)
A 		2322
avr 10.4
(-3) 		2128.9
(2.4) 		2370.7
(3) 		37.2
(-2.9) 		2360

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1461
1 2 3 4 5 6 range
A 28
(-3)
A 		1489.3
(3)
P 		456.9
(-1.2)
P 		336.3
(-1.7)
P 		365.3
(-1.6)
P 		585.8
(-0.7)
P 		1461
B 61.3
(-3)
M 		1401.2
(3)
P 		405.5
(-1.5)
P 		314.2
(-1.9)
P 		401
(-1.5)
P 		477.8
(-1.1)
P 		1340
C 37.7
(-3)
P 		1280.2
(3)
P 		441.7
(-1)
P 		186.9
(-2.3)
P 		437.7
(-1.1)
P 		497.2
(-0.8)
P 		1243
avr 42.3
(-3) 		1390.2
(3) 		434.7
(-1.3) 		279.1
(-1.9) 		401.3
(-1.4) 		520.3
(-0.9) 		1348
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 813
1 2 3 4 range
A 4.2
(-3)
A 		403.9
(0.9)
P 		620
(3)
P 		8.9
(-3)
A 		616
B 1.5
(-3)
A 		558.1
(3)
P 		557
(3)
P 		2.8
(-3)
A 		557
C 4.9
(-3)
A 		651.6
(1.8)
P 		814.4
(3)
P 		6.3
(-3)
A 		810
avr 3.5
(-3) 		537.9
(1.9) 		663.8
(3) 		6
(-3) 		660

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 525
1 2 3 4 5 6 range
A 5.2
(-3)
A 		529.7
(3)
P 		99.5
(-1.9)
P 		85.3
(-2.1)
P 		110.2
(-1.8)
P 		142.6
(-1.4)
P 		525
B 21.3
(-3)
M 		466.4
(3)
P 		98.5
(-2)
P 		83.2
(-2.2)
P 		162.9
(-1.1)
P 		178.2
(-0.9)
P 		445
C 14
(-3)
P 		390.6
(3)
P 		112.4
(-1.4)
P 		37.6
(-2.6)
P 		141.6
(-1)
P 		166.4
(-0.6)
P 		377
avr 13.5
(-3) 		462.2
(3) 		103.5
(-1.8) 		68.7
(-2.3) 		138.2
(-1.3) 		162.4
(-1) 		449
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188028_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11780
Sequence Type Exemplar sequence
Representative Public ID T18H9.1 NCBI
Target Description T18H9.1 /REP_DB=WormBase Gene ID /WP=CE04970 /GEN=grd-6 /TR=Q22551 /GB=AAA83334.1 /SUBMIT=ST.LOUIS /CHR=5 /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_072988(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072988 NCBI Caenorhabditis elegans GRounDhog (hedgehog-like family) family member (grd-6) (grd-6) mRNA, complete cds. 11/11 None
SNAP00000009701 ENSEMBL cdna:SNAP chromosome:CEL140:V:9224502:9226865:1 11/11 None
GENEFINDER00000009724 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:9224502:9226865:1 11/11 None
T18H9.1 ENSEMBL cdna:known chromosome:CEL140:V:9224502:9226865:1 gene:T18H9.1 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
chrV:9224501-9226865(+) 96.02 100.0
Public Domain and Genome References
Gene Title
Gene Symbol grd-6
Ensembl T18H9.1
Entrez Gene 179305 Entrez gene
SwissProt Q22551 EMBL-EBI
WormBase CE35772 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAA83334 Groundhog (hedgehog-like family) protein 6 [Caenorhabditis elegans] ref|NP_505389.3| GRounDhog (hedgehog-like family) family member (grd-6) [Caenorhabditis elegans] 1.0E-105
blast AAA83334 Groundhog (hedgehog-like family) protein 6 [Caenorhabditis elegans] ref|NP_505389.3| GRounDhog (hedgehog-like family) family member (grd-6) [Caenorhabditis elegans] 4.0E-93
blast CAE72134 Hypothetical protein CBG19232 [Caenorhabditis briggsae] 8.0E-76
blast CAE72134 Hypothetical protein CBG19232 [Caenorhabditis briggsae] 9.0E-76
blast AAK39144 Groundhog (hedgehog-like family) protein 9 [Caenorhabditis elegans] ref|NP_504535.2| GRounDhog (hedgehog-like family) family member (grd-9) [Caenorhabditis elegans] 1.0E-23
Protein Domains
Database ID Description E-Value
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 5.1E-26
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 5.1E-26
Sequence
Target Sequence 
>C. ELEGANS:188028_AT
ctacaccgagaccaactccaagaagaactagaaggcctaagacaacaactgctgctccaa
caactacaactgaggaagtcactcaaggatatgaggaggaagctgttgaattgccgaaat
atgatgagacctttgttgggcagtactattatggtcgtcgtggtgagggaggcaataaca
cttttccattgccatcttgtttctacaatccatcaggatatgtttgctgtaatctaatgc
tcaatgagcttatgtcaacttcttttgaagaagtgaaggttgccacaaatctctgcaacg
ttcacaaatttgcaaccaaactgcaaaagcattcagagaagatcttcagcacacaatttg
agactattgtttcttatcaggatttctctcaaaaaattcatttcaagaaagatctagtgt
gcaagatcgaggttgaaggaagattcattcttgcatatgcgacgccagaagatgtagagc
aggagaagattattccaactgtgccttcac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CTACACCGAGACCAACTCCAAGAAG 158 227 1187 Antisense
GGCCTAAGACAACAACTGCTGCTCC 253 543 1220 Antisense
GATGAGACCTTTGTTGGGCAGTACT 619 407 1309 Antisense
GGGCAGTACTATTATGGTCGTCGTG 65 493 1324 Antisense
TGGTCGTCGTGGTGAGGGAGGCAAT 600 551 1338 Antisense
TTCCATTGCCATCTTGTTTCTACAA 541 699 1370 Antisense
TGCCACAAATCTCTGCAACGTTCAC 450 587 1467 Antisense
GAGAAGATCTTCAGCACACAATTTG 8 393 1522 Antisense
GTTTCTTATCAGGATTTCTCTCAAA 137 451 1555 Antisense
GATTCATTCTTGCATATGCGACGCC 561 431 1628 Antisense
AAGATTATTCCAACTGTGCCTTCAC 403 155 1672 Antisense
Sequence Source Affymetrix Proprietary Database