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[187961_s_at]

Description C41D7.2 /REP_DB=WormBase Gene ID /WP=CE27582 /GEN=ptr-3 /TR=O16530 /GB=AAC48225.2 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 19      6grp_high1_10_10 > 91      4grp_highest_8_8 > 14      4grp_high_8_8 > 22      6grp_highest_nonorm > 92      6grp_total > 93      4grp_total > 17      6grp_highest_sub > 05      6grp_cgc > 99      6grp_high1_sub > 05      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 508
1 2 3 4 range
A 218.3
(-3)
P 		275
(-2.3)
P 		319.3
(-1.7)
P 		673.4
(3)
P 		455
B 203.1
(-3)
P 		305.6
(-1.3)
P 		210.6
(-2.9)
P 		571.2
(3)
P 		368
C 165.1
(-3)
P 		282.7
(-1)
P 		294.2
(-0.8)
P 		523.3
(3)
P 		358
avr 195.5
(-3) 		287.8
(-1.6) 		274.7
(-1.8) 		589.3
(3) 		394

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 752
1 2 3 4 5 6 range
A 234.1
(-2.4)
P 		338.7
(-1.6)
P 		165.4
(-3)
P 		296.5
(-1.9)
P 		899.1
(3)
P 		240.9
(-2.4)
P 		734
B 225.2
(-2.1)
P 		316.4
(-1.1)
P 		147.2
(-3)
P 		379
(-0.4)
P 		682.1
(3)
P 		289.8
(-1.4)
P 		535
C 179.4
(-3)
P 		347.5
(-1.3)
P 		182
(-3)
P 		272.3
(-2.1)
P 		781.5
(3)
P 		249.1
(-2.3)
P 		602
avr 212.9
(-2.5) 		334.2
(-1.4) 		164.9
(-3) 		315.9
(-1.5) 		787.6
(3) 		259.9
(-2.1) 		623
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 73
1 2 3 4 range
A 79.5
(0.1)
P 		59.7
(-3)
P 		83.5
(0.7)
P 		98.6
(3)
P 		39
B 64.8
(-1.7)
P 		75.5
(-0.8)
P 		48.8
(-3)
P 		121.7
(3)
P 		73
C 54.7
(-3)
P 		81.3
(0.3)
P 		102.5
(3)
P 		88.2
(1.2)
P 		48
avr 66.3
(-3) 		72.2
(-2) 		78.3
(-1) 		102.8
(3) 		37

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 241
1 2 3 4 5 6 range
A 43.1
(-2.8)
P 		120.5
(-0.8)
P 		36
(-3)
P 		75.2
(-2)
P 		271.3
(3)
P 		58.6
(-2.4)
P 		235
B 78.3
(-1.9)
P 		105.3
(-1.3)
P 		35.8
(-3)
P 		100.4
(-1.4)
P 		277.1
(3)
P 		108.1
(-1.2)
P 		241
C 66.5
(-2.4)
P 		106
(-1.3)
P 		46.3
(-3)
P 		54.8
(-2.8)
P 		252.9
(3)
P 		83.4
(-1.9)
P 		207
avr 62.6
(-2.4) 		110.6
(-1.1) 		39.4
(-3) 		76.8
(-2) 		267.1
(3) 		83.4
(-1.8) 		228
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187961_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5380
Sequence Type Exemplar sequence
Representative Public ID C41D7.2 NCBI
Target Description C41D7.2 /REP_DB=WormBase Gene ID /WP=CE27582 /GEN=ptr-3 /TR=O16530 /GB=AAC48225.2 /SUBMIT=ST.LOUIS /CHR=2 /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_061317(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061317 NCBI Caenorhabditis elegans PaTched Related family member (ptr-3) (ptr-3) mRNA, complete cds. 11/11 None
C41D7.2 ENSEMBL cdna:known chromosome:CEL140:II:362509:367423:-1 gene:C41D7.2 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
chrII:362637-366517(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ptr-3
Ensembl C41D7.2
Entrez Gene 173426 Entrez gene
SwissProt O16530 EMBL-EBI
WormBase CE27582 Wormbase
Functional Annotations
Gene Ontology
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
8158 hedgehog receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC48225 Patched related family protein 3 [Caenorhabditis elegans] ref|NP_493718.1| PaTched Related family member (ptr-3) [Caenorhabditis elegans] 0.0
blast CAE62788 Hypothetical protein CBG06961 [Caenorhabditis briggsae] 0.0
blast CAE60539 Hypothetical protein CBG04166 [Caenorhabditis briggsae] 1.0E-163
Protein Domains
Database ID Description E-Value
Pfam IPR003392 EMBL-EBI Patched family 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_493718.1 11 29-51,290-312,327-349,390-412,427-449,498-520,735-757,762-784,789-811,832-854,867-889
C41D7.2 11 29-51,290-312,327-349,390-412,427-449,498-520,735-757,762-784,789-811,832-854,867-889
Sequence
Target Sequence 
>C. ELEGANS:187961_S_AT
tgatcgaaacaatgtccccagtcgccattcaatcagccctctggacatttgcctcaatgt
ttcttgtggcagcactctttatttcccatcctccaacacttttcgtcgccaccttttcca
ttctctctacttcattgggagttttcggtataatgtcatggtggggtgcggatctagatc
caattatgatgtcagctacagtaatgtcaattggtttctcagttgacataccttcccatg
tcagttatcacttctaccagacagctaaggacacttcagatattcggagaaggcttcaga
tgacgattgaagcagtcggattcccgatcttcgaagcatcgttatccacgtcgctgtgtg
tgatgtcacttttctttgtcgatttgaatatggcgcagattttcgcaaaatgtatgcttc
tcgttgtagtaattggaatggttcacggaatgctcgtgatgcctgtaatatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TGATCGAAACAATGTCCCCAGTCGC 428 565 2069 Antisense
TTCAATCAGCCCTCTGGACATTTGC 576 685 2096 Antisense
TTGTGGCAGCACTCTTTATTTCCCA 81 707 2132 Antisense
TTCCATTCTCTCTACTTCATTGGGA 589 699 2184 Antisense
GGTTTCTCAGTTGACATACCTTCCC 643 505 2281 Antisense
CCATGTCAGTTATCACTTCTACCAG 194 271 2304 Antisense
GAAGCAGTCGGATTCCCGATCTTCG 470 341 2377 Antisense
TTCGAAGCATCGTTATCCACGTCGC 460 695 2398 Antisense
TCCACGTCGCTGTGTGTGATGTCAC 395 589 2413 Antisense
GTGATGTCACTTTTCTTTGTCGATT 705 483 2428 Antisense
GAATGCTCGTGATGCCTGTAATATT 442 331 2516 Antisense
Sequence Source Affymetrix Proprietary Database