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[188073_at]

Description C04E6.6 /REP_DB=WormBase Gene ID /WP=CE07911 /GEN=grd-9 /TR=O01465 /GB=AAK39144.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 83      4grp_total > 05      6grp_cgc > 87      6grp_cgc_sub > 05      6grp_total_sub > Hat      6grp_rule_based > S5      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 37
1 2 3 4 range
A 21.1
(-0.5)
A 		7.9
(-3)
A 		9.4
(-2.7)
A 		39.9
(3)
A 		32
B 11.3
(-1.5)
A 		4.9
(-2.7)
A 		3
(-3)
A 		35.9
(3)
A 		33
C 15.9
(-1.4)
A 		13.1
(-3)
A 		16.4
(-1.1)
A 		23.6
(3)
A 		11
avr 16.1
(-1.2) 		8.6
(-3) 		9.6
(-2.8) 		33.1
(3) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 449
1 2 3 4 5 6 range
A 23.6
(-2.7)
A 		4.1
(-3)
A 		5.5
(-3)
A 		322.8
(1.5)
P 		428.7
(3)
P 		55
(-2.3)
P 		425
B 4.2
(-3)
A 		2.7
(-3)
A 		28.4
(-2.7)
A 		299.1
(1)
P 		451.7
(3)
P 		65.1
(-2.2)
P 		449
C 20.3
(-2.8)
A 		5.3
(-3)
A 		38.4
(-2.5)
A 		323
(1.7)
P 		409.7
(3)
P 		82
(-1.9)
P 		404
avr 16
(-2.8) 		4
(-3) 		24.1
(-2.7) 		315
(1.4) 		430
(3) 		67.4
(-2.1) 		426
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 7
1 2 3 4 range
A 7.7
(3)
A 		1.7
(-3)
A 		2.4
(-2.3)
A 		5.8
(1.1)
A 		6
B 3.6
(-0.5)
A 		1.2
(-2.6)
A 		0.7
(-3)
A 		7.7
(3)
A 		7
C 5.3
(1.7)
A 		3.8
(-3)
A 		5.7
(3)
A 		4
(-2.4)
A 		2
avr 5.5
(2.5) 		2.2
(-3) 		2.9
(-1.8) 		5.8
(3) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 183
1 2 3 4 5 6 range
A 4.3
(-2.9)
A 		1.4
(-3)
A 		1.2
(-3)
A 		81.9
(0.8)
P 		129.3
(3)
P 		13.4
(-2.4)
P 		128
B 1.5
(-3)
A 		0.9
(-3)
A 		6.9
(-2.8)
A 		79.2
(-0.4)
P 		183.5
(3)
P 		24.3
(-2.2)
P 		183
C 7.5
(-2.7)
A 		1.6
(-3)
A 		9.8
(-2.6)
A 		65
(-0.1)
P 		132.6
(3)
P 		27.4
(-1.8)
P 		131
avr 4.4
(-2.9) 		1.3
(-3) 		6
(-2.8) 		75.4
(0) 		148.5
(3) 		21.7
(-2.2) 		147
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188073_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.11625
Sequence Type Exemplar sequence
Representative Public ID C04E6.6 NCBI
Target Description C04E6.6 /REP_DB=WormBase Gene ID /WP=CE07911 /GEN=grd-9 /TR=O01465 /GB=AAK39144.1 /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_072134(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072134 NCBI Caenorhabditis elegans GRounDhog (hedgehog-like family) family member (grd-9) (grd-9) mRNA, complete cds. 10/11 None
SNAP00000001265 ENSEMBL cdna:SNAP chromosome:CEL140:V:5898729:5901037:1 10/11 None
GENEFINDER00000001278 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:5897982:5901037:1 10/11 None
C04E6.6 ENSEMBL cdna:known chromosome:CEL140:V:5897982:5901037:1 gene:C04E6.6 10/11 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:5898728-5900799(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol grd-9
Ensembl C04E6.6
Entrez Gene 191663 Entrez gene
SwissProt O01465 EMBL-EBI
WormBase CE34652 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAK39144 Groundhog (hedgehog-like family) protein 9 [Caenorhabditis elegans] ref|NP_504535.2| GRounDhog (hedgehog-like family) family member (grd-9) [Caenorhabditis elegans] 0.0
blast CAE64551 Hypothetical protein CBG09297 [Caenorhabditis briggsae] 3.0E-91
blast AAA83334 Groundhog (hedgehog-like family) protein 6 [Caenorhabditis elegans] ref|NP_505389.3| GRounDhog (hedgehog-like family) family member (grd-6) [Caenorhabditis elegans] 9.0E-24
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-23
Protein Domains
Database ID Description E-Value
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 7.8E-33
Pfam IPR007284 EMBL-EBI Protein of unknown function DUF398 7.8E-33
Sequence
Target Sequence 
>C. ELEGANS:188073_AT
caaacgcagtttcacagccgacaatacttgattttgtggagagatccaagcagcagaaca
agctgatgagaatcccagtttatcgtggaaagaaacttgaagctgaatcgaacggaacta
gtggtgcttacgaagatggagatgacaatggtgaacataatagagaagaagaagaagaat
cttcccaatactcatccaacatccgagacatggaacaaccgactaaatattcaagcaaac
caaatgtaaaatactcatacccaccaaaagatacacttcctcttcaaacttgttttcata
atccatctggatatgtctgttgtaatcttgaattgaacaatgtcgttgaatcaacctaca
aagaagtcagagaactaccaaatttcaatccgtgtaatcttcaacttatcgccaacaagg
ttcaacgtgccagtgaacgaatgtttggacacccgtttgaaagtattgtgtcacatgcag
attttgcccaaaacattaatttttccggcgatttgcaacctgt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAACGCAGTTTCACAGCCGACAAT 651 191 986 Antisense
CGAACGGAACTAGTGGTGCTTACGA 649 251 1094 Antisense
ATACTCATCCAACATCCGAGACATG 507 23 1173 Antisense
ACCCACCAAAAGATACACTTCCTCT 215 75 1244 Antisense
AACTTGTTTTCATAATCCATCTGGA 571 137 1272 Antisense
GAACTACCAAATTTCAATCCGTGTA 563 349 1357 Antisense
GTGTAATCTTCAACTTATCGCCAAC 233 485 1377 Antisense
ATCGCCAACAAGGTTCAACGTGCCA 699 35 1393 Antisense
GAACGAATGTTTGGACACCCGTTTG 552 321 1420 Antisense
GTGTCACATGCAGATTTTGCCCAAA 688 485 1453 Antisense
ATTTTTCCGGCGATTTGCAACCTGT 607 13 1484 Antisense
Sequence Source Affymetrix Proprietary Database