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[190375_at]

Description F46B3.5 /REP_DB=WormBase Gene ID /WP=CE18688 /GEN=grd-2 /TR=Q9XV14 /GB=CAB04405.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Hint module
Cluster 6grp_total > 0      4grp_total > 49      6grp_total_sub > Hat      6grp_cgc > 53      6grp_cgc_sub > 02      6grp_rule_based > S2      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 158
1 2 3 4 range
A 19.5
(-2.8)
A 		124.3
(2.3)
A 		139.5
(3)
A 		16.4
(-3)
A 		123
B 19.3
(-2.7)
A 		158.9
(2.6)
A 		170.5
(3)
A 		12.6
(-3)
A 		158
C 13.2
(-3)
A 		115.4
(2.1)
A 		132.7
(3)
A 		13.1
(-3)
A 		120
avr 17.3
(-2.9) 		132.9
(2.3) 		147.6
(3) 		14
(-3) 		134

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 127
1 2 3 4 5 6 range
A 6.5
(-2.9)
A 		66.7
(3)
A 		16.5
(-2)
A 		11.1
(-2.5)
A 		29.4
(-0.7)
A 		5.9
(-3)
A 		61
B 19.9
(-2.6)
A 		131.1
(3)
A 		12.6
(-3)
A 		15.6
(-2.8)
A 		24.9
(-2.4)
A 		13.9
(-2.9)
A 		119
C 5.7
(-2.9)
A 		115.5
(3)
A 		4.5
(-3)
A 		16
(-2.4)
A 		21.4
(-2.1)
A 		11.7
(-2.6)
A 		111
avr 10.7
(-3) 		104.4
(3) 		11.2
(-3) 		14.2
(-2.8) 		25.2
(-2.1) 		10.5
(-3) 		94
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 44
1 2 3 4 range
A 7.1
(-2.2)
A 		27
(1.3)
A 		36.5
(3)
A 		2.4
(-3)
A 		34
B 6.2
(-2.4)
A 		39.2
(3)
A 		39.5
(3)
A 		2.7
(-3)
A 		37
C 4.4
(-2.7)
A 		33.2
(1.2)
A 		46.3
(3)
A 		2.2
(-3)
A 		44
avr 5.9
(-2.5) 		33.1
(1.8) 		40.8
(3) 		2.4
(-3) 		38

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 43
1 2 3 4 5 6 range
A 1.2
(-3)
A 		23.7
(3)
A 		3.6
(-2.4)
A 		2.8
(-2.6)
A 		8.9
(-0.9)
A 		1.4
(-2.9)
A 		23
B 6.9
(-2.4)
A 		43.6
(3)
A 		3.1
(-3)
A 		4.1
(-2.9)
A 		10.1
(-2)
A 		5.2
(-2.7)
A 		41
C 2.1
(-2.8)
A 		35.2
(3)
A 		1.1
(-3)
A 		3.2
(-2.6)
A 		6.9
(-2)
A 		3.9
(-2.5)
A 		34
avr 3.4
(-2.8) 		34.2
(3) 		2.6
(-3) 		3.4
(-2.8) 		8.6
(-1.9) 		3.5
(-2.8) 		32
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 190375_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14132
Sequence Type Exemplar sequence
Representative Public ID F46B3.5 NCBI
Target Description F46B3.5 /REP_DB=WormBase Gene ID /WP=CE18688 /GEN=grd-2 /TR=Q9XV14 /GB=CAB04405.1 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=Hint module
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_075576(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_075576 NCBI Caenorhabditis elegans GRounDhog (hedgehog-like family) family member (grd-2) (grd-2) mRNA, complete cds. 11/11 None
SNAP00000039759 ENSEMBL cdna:SNAP chromosome:CEL140:V:20607940:20611783:1 11/11 None
GENEFINDER00000039774 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:20608657:20611783:1 11/11 None
F46B3.5 ENSEMBL cdna:known chromosome:CEL140:V:20607914:20611835:1 gene:F46B3.5 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:20608656-20611783(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol grd-2
Ensembl F46B3.5
Entrez Gene 180349 Entrez gene
SwissProt Q9XV14 EMBL-EBI
WormBase CE34022 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6508 proteolysis inferred from electronic annotation QuickGO AmiGO
7154 cell communication inferred from electronic annotation QuickGO AmiGO
7275 development inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5576 extracellular region inferred from sequence similarity QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8233 peptidase activity inferred from electronic annotation QuickGO AmiGO
5102 receptor binding inferred from sequence similarity QuickGO AmiGO
4175 endopeptidase activity inferred from sequence similarity QuickGO AmiGO
15485 cholesterol binding inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB04405 Hypothetical protein F46B3.5 [Caenorhabditis elegans] ref|NP_507977.2| GRounDhog (hedgehog-like family) family member (grd-2) [Caenorhabditis elegans] 0.0
blast CAA92000 Hypothetical protein R08B4.1a [Caenorhabditis elegans] ref|NP_001024843.1| R08B4.1a [Caenorhabditis elegans] 1.0E-175
blast CAD91696 Hypothetical protein R08B4.1b [Caenorhabditis elegans] ref|NP_001024844.1| R08B4.1b [Caenorhabditis elegans] 1.0E-175
Protein Domains
Database ID Description E-Value
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 1.1E-15
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 3.6E-32
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 1.4E-34
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 1.1E-29
Pfam IPR001767 EMBL-EBI Peptidase C46, hedgehog protein, hint region 1.6E-59
Pfam IPR001767 EMBL-EBI Peptidase C46, hedgehog protein, hint region 1.6E-59
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 2.0E-8
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 3.6E-32
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 1.4E-34
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 1.1E-29
Pfam IPR001767 EMBL-EBI Peptidase C46, hedgehog protein, hint region 1.6E-59
Sequence
Target Sequence 
>C. ELEGANS:190375_AT
gatgcttctccagtgacacattggttactacaccatcgggcaagaagagaatggatgaga
ttgacgttggagattatgtgctaactgcaaatcgcgtgaagacacactttactcctgtca
ctttgtggatccatcgcgagtctgaaaagttggaagagttcttaacgatcactaccgaga
gaggaagtactcttcaactaacacctcttcatttcatgtaccggacaaagtgtaatgaat
cttctgaattcctaaaaattcttcccgaaaaccacgaagctattttggcttcataccttg
agattggggattgcgtgattttgaccgagaacaccaagttccgccaagagaaaataaatc
agaccactcggggtttgaaaactggaatctattcaccgctaacgaaaaatggacggatca
ttgtcaatgacatgttggcctcctgttatagtgaagttcaggcaaacgtacttcagacta
catacttttgggtcttcaaccgtctccgtcaaaaagttctcaacttatttggaattcttc
atatgaatgagattgagcttcccaccggaacagcagtgtaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATGCTTCTCCAGTGACACATTGGT 81 413 2000 Antisense
GGTTACTACACCATCGGGCAAGAAG 102 505 2022 Antisense
AAGACACACTTTACTCCTGTCACTT 438 153 2098 Antisense
TGTGGATCCATCGCGAGTCTGAAAA 590 553 2123 Antisense
GAAGTACTCTTCAACTAACACCTCT 164 337 2183 Antisense
TAACACCTCTTCATTTCATGTACCG 294 639 2198 Antisense
CTGGAATCTATTCACCGCTAACGAA 550 241 2381 Antisense
CAATGACATGTTGGCCTCCTGTTAT 308 183 2424 Antisense
CATACTTTTGGGTCTTCAACCGTCT 137 187 2480 Antisense
TCAACCGTCTCCGTCAAAAAGTTCT 319 629 2495 Antisense
CTTCCCACCGGAACAGCAGTGTACA 241 219 2557 Antisense
Sequence Source Affymetrix Proprietary Database