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[188066_at]

Description C24B5.3 /REP_DB=WormBase Gene ID /WP=CE06861 /GEN=ptr-1 /TR=Q18129 /GB=AAA96120.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 07      6grp_high1_10_10 > 71      4grp_highest_8_8 > 02      4grp_high_8_8 > 54      6grp_highest_nonorm > 62      6grp_total > 71      4grp_total > 49      6grp_highest_sub > 04      6grp_cgc > 84      6grp_high1_sub > 04      6grp_cgc_sub > 04      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 732
1 2 3 4 range
A 150.7
(-2.9)
P 		561.1
(1.5)
P 		698.2
(3)
P 		137.2
(-3)
P 		561
B 161.9
(-2.3)
P 		760.7
(3)
P 		648.6
(2)
P 		85
(-3)
P 		676
C 132.5
(-3)
P 		643.3
(1.5)
P 		816.6
(3)
P 		132.5
(-3)
P 		684
avr 148.4
(-2.7) 		655
(2.3) 		721.1
(3) 		118.2
(-3) 		603

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 467
1 2 3 4 5 6 range
A 418.7
(-0.6)
P 		466.9
(0.4)
P 		546.3
(2.1)
P 		591.4
(3)
P 		580.4
(2.8)
P 		299.9
(-3)
P 		292
B 380
(-2.8)
P 		569.7
(0.2)
P 		508.6
(-0.7)
P 		744.5
(3)
P 		557.4
(0)
P 		366.9
(-3)
P 		378
C 277.5
(-3)
P 		575.6
(1.1)
P 		535.2
(0.5)
P 		714.8
(3)
P 		437.1
(-0.8)
P 		378.1
(-1.6)
P 		437
avr 358.7
(-2.8) 		537.4
(0.4) 		530
(0.3) 		683.6
(3) 		525
(0.2) 		348.3
(-3) 		335
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 267
1 2 3 4 range
A 54.9
(-1.7)
P 		121.8
(0.8)
P 		182.5
(3)
P 		20.1
(-3)
P 		162
B 51.6
(-1.8)
P 		187.9
(3)
P 		150.3
(1.7)
P 		18.1
(-3)
P 		170
C 43.8
(-2.5)
P 		185
(0.7)
P 		284.6
(3)
P 		22.3
(-3)
P 		262
avr 50.1
(-2) 		164.9
(1.7) 		205.8
(3) 		20.2
(-3) 		186

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 154
1 2 3 4 5 6 range
A 77.2
(-2.8)
P 		166
(2.5)
P 		119
(-0.3)
P 		150
(1.5)
P 		175.1
(3)
P 		73
(-3)
P 		102
B 132.2
(-2.5)
P 		189.6
(0.9)
P 		123.5
(-3)
P 		197.2
(1.3)
P 		226.5
(3)
P 		136.8
(-2.2)
P 		103
C 102.8
(-3)
P 		175.6
(3)
P 		136.2
(-0.2)
P 		143.7
(0.4)
P 		141.4
(0.2)
P 		126.6
(-1)
P 		73
avr 104.1
(-3) 		177.1
(2.7) 		126.2
(-1.3) 		163.6
(1.6) 		181
(3) 		112.1
(-2.4) 		77
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188066_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.12077
Sequence Type Exemplar sequence
Representative Public ID C24B5.3 NCBI
Target Description C24B5.3 /REP_DB=WormBase Gene ID /WP=CE06861 /GEN=ptr-1 /TR=Q18129 /GB=AAA96120.1 /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_072979(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_072979 NCBI Caenorhabditis elegans PaTched Related family member (ptr-1) (ptr-1) mRNA, complete cds. 11/11 None
SNAP00000040464 ENSEMBL cdna:SNAP chromosome:CEL140:V:9180629:9184265:-1 11/11 None
GENEFINDER00000040472 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:9180629:9184265:-1 11/11 None
C24B5.3 ENSEMBL cdna:known chromosome:CEL140:V:9180629:9184304:-1 gene:C24B5.3 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:9180629-9184266(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ptr-1
Ensembl C24B5.3
Entrez Gene 191746 Entrez gene
SwissProt Q18129 EMBL-EBI
WormBase CE06861 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 AAA96120 Patched related family protein 1 [Caenorhabditis elegans] ref|NP_505380.1| PaTched Related family member (ptr-1) [Caenorhabditis elegans] 0.0
blast CAE72125 Hypothetical protein CBG19221 [Caenorhabditis briggsae] 0.0
blast CAE63242 Hypothetical protein CBG07607 [Caenorhabditis briggsae] 1.0E-167
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
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_505380.1 11 22-44,286-308,328-350,357-379,399-421,433-455,561-583,786-808,828-850,862-884,894-916
C24B5.3 11 22-44,286-308,328-350,357-379,399-421,433-455,561-583,786-808,828-850,862-884,894-916
SNAP00000040464 9 260-282,303-325,329-351,410-429,535-557,760-782,802-824,836-858,868-890
GENEFINDER00000040472 11 22-44,286-308,328-350,357-379,399-421,433-455,561-583,786-808,828-850,862-884,894-916
Sequence
Target Sequence 
>C. ELEGANS:188066_AT
gaattgacaccttctttattccaaaatatgatttccgatttatgcacaatatttgctgtt
tcatgggttatgattcctgaattaatttgtgcagtggcaattgttctttccattgccagt
attaatgttggagttcttggattcatgtcgttctggggagtcaatctggacagtgtttca
attattacggttatcatgtgcattggattttcggttgatttgagtgctcacatagcatac
gctttctcgcaaagttatggaaactcccatgctcgagcagttgctgctttggaaactctc
ggatggcctgtattccttggtgcatcgtcaacagtactaggaattcttttattaactctc
gtggactcttatatcgtacagatattcttcaaaaccgttttcctagtgatcaacttttcc
attcttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATTGACACCTTCTTTATTCCAAA 548 323 2320 Antisense
ATTGTTCTTTCCATTGCCAGTATTA 558 3 2419 Antisense
GGAGTTCTTGGATTCATGTCGTTCT 672 517 2449 Antisense
ATGTCGTTCTGGGGAGTCAATCTGG 166 47 2464 Antisense
GCTCACATAGCATACGCTTTCTCGC 237 301 2545 Antisense
GTTATGGAAACTCCCATGCTCGAGC 659 445 2573 Antisense
GCAGTTGCTGCTTTGGAAACTCTCG 158 313 2596 Antisense
GAAACTCTCGGATGGCCTGTATTCC 403 357 2611 Antisense
TGTATTCCTTGGTGCATCGTCAACA 457 561 2628 Antisense
ACTCTCGTGGACTCTTATATCGTAC 189 101 2674 Antisense
CTAGTGATCAACTTTTCCATTCTTC 208 225 2722 Antisense
Sequence Source Affymetrix Proprietary Database