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[188170_at]

Description F55F8.1 /REP_DB=WormBase Gene ID /WP=CE11188 /GEN=ptr-10 /TR=P91346 /GB=AAB37812.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_high1_10_10 > 0      6grp_total > 60      4grp_total > 57      6grp_cgc > 95      6grp_cgc_sub > 04      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 447
1 2 3 4 range
A 17.1
(-3)
A 		280.4
(2.7)
P 		296.4
(3)
P 		23.4
(-2.9)
A 		279
B 25.1
(-3)
A 		383.2
(3)
P 		286.5
(1.4)
P 		38.5
(-2.8)
A 		358
C 43.3
(-2.8)
A 		464.2
(3)
P 		410.6
(2.3)
P 		25.9
(-3)
A 		438
avr 28.5
(-3) 		375.9
(3) 		331.2
(2.2) 		29.3
(-3) 		347

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 454
1 2 3 4 5 6 range
A 348.6
(1.8)
P 		188.5
(-0.8)
P 		216.8
(-0.3)
P 		418.4
(3)
P 		153.5
(-1.4)
P 		55.2
(-3)
A 		363
B 324.1
(0.7)
P 		161.8
(-1.4)
P 		206
(-0.8)
P 		494.8
(3)
P 		140.9
(-1.7)
P 		40.4
(-3)
P 		454
C 331.9
(1.9)
P 		201.6
(-0.7)
P 		200.4
(-0.7)
P 		386.6
(3)
P 		163.2
(-1.5)
P 		87.6
(-3)
P 		299
avr 334.9
(1.4) 		184
(-1) 		207.7
(-0.6) 		433.3
(3) 		152.5
(-1.5) 		61.1
(-3) 		372
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 140
1 2 3 4 range
A 6.2
(-2.8)
A 		60.9
(1.7)
P 		77.5
(3)
P 		3.4
(-3)
A 		74
B 8
(-3)
A 		94.6
(3)
P 		66.4
(1)
P 		8.2
(-3)
A 		87
C 14.3
(-2.6)
A 		133.5
(2.6)
P 		143.1
(3)
P 		4.4
(-3)
A 		139
avr 9.5
(-2.7) 		96.3
(3) 		95.7
(3) 		5.3
(-3) 		91

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 118
1 2 3 4 5 6 range
A 64.3
(0.3)
P 		67
(0.5)
P 		47.2
(-0.8)
P 		106.1
(3)
P 		46.3
(-0.9)
P 		13.4
(-3)
A 		93
B 112.8
(2.1)
P 		53.8
(-1)
P 		50
(-1.2)
P 		131.1
(3)
P 		57.2
(-0.8)
P 		15.1
(-3)
P 		116
C 123
(3)
P 		61.5
(-0.9)
P 		51
(-1.6)
P 		77.7
(0.1)
P 		52.8
(-1.5)
P 		29.3
(-3)
P 		94
avr 100
(2.6) 		60.8
(-0.1) 		49.4
(-0.9) 		105
(3) 		52.1
(-0.7) 		19.3
(-3) 		86
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188170_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.668
Sequence Type Exemplar sequence
Representative Public ID F55F8.1 NCBI
Target Description F55F8.1 /REP_DB=WormBase Gene ID /WP=CE11188 /GEN=ptr-10 /TR=P91346 /GB=AAB37812.1 /SUBMIT=ST.LOUIS /CHR=1 /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_059257(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059257 NCBI Caenorhabditis elegans PaTched Related family member (ptr-10) (ptr-10) mRNA, complete cds. 10/11 None
GENEFINDER00000024476 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:5661491:5666966:1 10/11 None
SNAP00000024472 ENSEMBL cdna:SNAP chromosome:CEL140:I:5662289:5666966:1 10/11 None
F55F8.1.1 ENSEMBL cdna:known chromosome:CEL140:I:5662146:5667147:1 gene:F55F8.1 10/11 None
F55F8.1.2 ENSEMBL cdna:known chromosome:CEL140:I:5662287:5667147:1 gene:F55F8.1 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
chrI:5661490-5666966(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ptr-10
Ensembl F55F8.1
Entrez Gene 172229 Entrez gene
SwissProt P91346 EMBL-EBI
WormBase CE36938 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 AAB37812 Patched related family protein 10 [Caenorhabditis elegans] ref|NP_491658.2| PaTched Related family member (ptr-10) [Caenorhabditis elegans] 0.0
blast CAE68940 Hypothetical protein CBG14920 [Caenorhabditis briggsae] 0.0
blast AAB42325 Patched related family protein 2 [Caenorhabditis elegans] ref|NP_491221.1| PaTched Related family member (ptr-2) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003392 EMBL-EBI Patched family 1.0E-126
Pfam IPR003392 EMBL-EBI Patched family 1.0E-126
Pfam IPR003392 EMBL-EBI Patched family 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491658.2 12 20-42,271-290,303-325,335-357,378-400,410-432,519-541,727-746,751-773,783-805,818-840,855-877
F55F8.1.1 12 20-42,271-290,303-325,335-357,378-400,410-432,519-541,727-746,751-773,783-805,818-840,855-877
F55F8.1.2 12 20-42,271-290,303-325,335-357,378-400,410-432,519-541,727-746,751-773,783-805,818-840,855-877
GENEFINDER00000024476 13 15-37,58-80,314-333,346-368,378-400,421-443,453-475,562-584,770-789,794-816,826-848,861-883,898-920
SNAP00000024472 12 20-42,271-290,303-325,335-357,378-400,410-432,519-541,727-746,751-773,783-805,837-859,869-891
Sequence
Target Sequence 
>C. ELEGANS:188170_AT
atgccattgtggttattcactgatcaatatgcccttgtagttcccaacacaatgcaagac
atcatagttgctgtagcatgtatgcttgtcatatcagctcttctcattcctcaaccagtt
tgctctttctgggttgctgttacaattggatcaattgatttgggagttctcggatttatg
acgctttggaatgttaaccttgatgcaatttcaatgattacaattatcatgtctgttgga
ttttcagtcgattattcagctcatataacatatgcatatgttatttcgaaagaatcgaca
acttcagcaagagtttgtgatgctcttggagatctcggatggcctgttgcgcaaggtgca
atgtcaacaattttggcagtttctgtattgtctgatgtgcctgcttatatgattgttaca
tttttcaagacagtttttctcgcaatttcaattggattccttcatggattagtatttctt
ccgttgatgctttccgtttttgttggtaagatttttgacattcacatttcaaatatatca
attaaatattgtatttatctaggttgctgttcatc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGCCATTGTGGTTATTCACTGATC 528 41 2053 Antisense
TCAATATGCCCTTGTAGTTCCCAAC 10 635 2076 Antisense
GTTCCCAACACAATGCAAGACATCA 667 441 2092 Antisense
ATGCTTGTCATATCAGCTCTTCTCA 636 41 2134 Antisense
TCCTCAACCAGTTTGCTCTTTCTGG 302 591 2160 Antisense
TTGCTCTTTCTGGGTTGCTGTTACA 312 703 2172 Antisense
GGAGTTCTCGGATTTATGACGCTTT 674 517 2215 Antisense
GACGCTTTGGAATGTTAACCTTGAT 288 379 2232 Antisense
GGATTTTCAGTCGATTATTCAGCTC 667 509 2290 Antisense
AAGAATCGACAACTTCAGCAAGAGT 476 137 2342 Antisense
GTATTTATCTAGGTTGCTGTTCATC 251 453 2603 Antisense
Sequence Source Affymetrix Proprietary Database