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[188171_s_at]

Description C53C11.3 /REP_DB=WormBase Gene ID /WP=CE04266 /GEN=ptr-5 /TR=P91184 /GB=AAB42308.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 60      6grp_high1_10_10 > 17      4grp_highest_8_8 > 54      4grp_high_8_8 > 10      6grp_highest_nonorm > 70      6grp_total > 06      4grp_total > 22      6grp_highest_sub > De      6grp_cgc > 12      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 312
1 2 3 4 range
A 453.5
(2.4)
P 		273.8
(-1.3)
P 		193
(-3)
P 		480.9
(3)
P 		288
B 441.6
(3)
P 		227.8
(-1.7)
P 		169.4
(-3)
P 		385.7
(1.8)
P 		272
C 419.9
(2.6)
P 		246.6
(-2)
P 		206.7
(-3)
P 		436.8
(3)
P 		230
avr 438.3
(3) 		249.4
(-1.6) 		189.7
(-3) 		434.5
(2.9) 		249

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 237
1 2 3 4 5 6 range
A 427.7
(3)
P 		310.9
(-0.3)
P 		227.3
(-2.7)
P 		218.3
(-3)
P 		258.1
(-1.9)
P 		262.7
(-1.7)
P 		209
B 392.9
(3)
P 		336.2
(0.8)
P 		268.4
(-1.7)
P 		244.1
(-2.6)
P 		258.2
(-2.1)
P 		234.7
(-3)
P 		158
C 390.1
(3)
P 		292.4
(0.1)
P 		300.2
(0.3)
P 		209.3
(-2.4)
P 		243.7
(-1.4)
P 		190.3
(-3)
P 		200
avr 403.6
(3) 		313.2
(-0) 		265.3
(-1.6) 		223.9
(-3) 		253.3
(-2) 		229.2
(-2.8) 		180
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 126
1 2 3 4 range
A 165.1
(3)
P 		59.4
(-2.5)
P 		50.5
(-3)
P 		70.4
(-2)
P 		115
B 140.8
(3)
P 		56.3
(-2)
P 		39.2
(-3)
P 		82.2
(-0.5)
P 		102
C 139
(3)
P 		70.9
(-3)
P 		72
(-2.9)
P 		73.7
(-2.8)
P 		68
avr 148.3
(3) 		62.2
(-2.5) 		53.9
(-3) 		75.4
(-1.6) 		94

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 103
1 2 3 4 5 6 range
A 78.8
(-0.1)
P 		110.6
(3)
P 		49.5
(-3)
P 		55.4
(-2.4)
P 		77.9
(-0.2)
P 		64
(-1.6)
P 		61
B 136.7
(3)
P 		111.9
(0.9)
P 		65.2
(-3)
P 		64.6
(-3)
P 		104.9
(0.4)
P 		87.5
(-1.1)
P 		72
C 144.6
(3)
P 		89.2
(-0.2)
P 		76.4
(-1)
P 		42.1
(-3)
P 		78.9
(-0.8)
P 		63.7
(-1.7)
P 		103
avr 120
(3) 		103.9
(1.5) 		63.7
(-2.1) 		54
(-3) 		87.2
(0) 		71.7
(-1.4) 		66
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188171_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17941
Sequence Type Exemplar sequence
Representative Public ID C53C11.3 NCBI
Target Description C53C11.3 /REP_DB=WormBase Gene ID /WP=CE04266 /GEN=ptr-5 /TR=P91184 /GB=AAB42308.1 /SUBMIT=ST.LOUIS /CHR=X /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_078409(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_078409 NCBI Caenorhabditis elegans PaTched Related family member (ptr-5) (ptr-5) mRNA, complete cds. 11/11 None
GENEFINDER00000044480 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:17310891:17325920:1 11/11 None
SNAP00000044473 ENSEMBL cdna:SNAP chromosome:CEL140:X:17320170:17325920:1 11/11 None
C53C11.3 ENSEMBL cdna:known chromosome:CEL140:X:17318495:17326514:1 gene:C53C11.3 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
chrX:17320188-17326126(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ptr-5
Ensembl C53C11.3
Entrez Gene 181764 Entrez gene
SwissProt P91184 EMBL-EBI
WormBase CE34277 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 AAB42308 Patched related family protein 5 [Caenorhabditis elegans] ref|NP_510810.3| PaTched Related family member (ptr-5) [Caenorhabditis elegans] 0.0
blast CAE69686 Hypothetical protein CBG15941 [Caenorhabditis briggsae] 0.0
blast CAE61292 Hypothetical protein CBG05116 [Caenorhabditis briggsae] 1.0E-168
Protein Domains
Database ID Description E-Value
Pfam IPR003392 EMBL-EBI Patched family 9.8E-68
Pfam IPR003392 EMBL-EBI Patched family 2.4E-112
Pfam IPR008627 EMBL-EBI GETHR pentapeptide 2.5E-8
Pfam IPR008627 EMBL-EBI GETHR pentapeptide 6.2E-8
Pfam IPR003392 EMBL-EBI Patched family 9.8E-68
Pfam IPR003392 EMBL-EBI Patched family 2.4E-112
Pfam IPR003392 EMBL-EBI Patched family 4.3E-63
Pfam IPR003392 EMBL-EBI Patched family 2.4E-112
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510810.3 12 67-89,326-348,357-379,389-411,432-454,464-486,521-543,753-770,777-799,804-826,857-879,889-911
C53C11.3 12 67-89,326-348,357-379,389-411,432-454,464-486,521-543,753-770,777-799,804-826,857-879,889-911
GENEFINDER00000044480 11 388-410,419-441,451-473,494-516,526-548,596-618,828-845,852-874,879-901,932-954,964-986
SNAP00000044473 11 197-219,228-250,260-282,303-325,335-357,392-414,624-641,648-670,675-697,728-750,760-782
Sequence
Target Sequence 
>C. ELEGANS:188171_S_AT
ggactctagtctgtatggctgtggtttgtgcaattttcattccaaatccatgcagtatta
tcacagcaacagtctccatcgcttctatcactactggcgttatgggattcctctcgctgt
ggtccttcgacctcgacccggttgtcatggcggcggttttgatgtcgatcggactgtctg
ttgactttattgctcacgtcgcgtaccatttccagctggctcaccggaaggagatccgaa
atggaaaaatcaaaaagatccctctcaaagggtcaactgaacgcttggagcacaccctcg
gagccgtcgcgtggccaatgattcaggcaggagtgtcgacgatttgctgcattcttccgc
tgctcttccgcgcgagttattcgccatctgttttcgtggccgcaatctttctcgtcgtca
cattcggaatgctccatgggcttttgattctgcccactttcctggcggcacttcccgaaa
gcgtgaccactgccaactgctaccgcgtcttcctgtcgtcgtcatcggagcggagttgcc
gc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGACTCTAGTCTGTATGGCTGTGGT 174 523 1952 Antisense
TTATCACAGCAACAGTCTCCATCGC 367 679 2009 Antisense
CTGGCGTTATGGGATTCCTCTCGCT 432 241 2045 Antisense
ATGGCGGCGGTTTTGATGTCGATCG 543 53 2098 Antisense
GTCGATCGGACTGTCTGTTGACTTT 13 473 2115 Antisense
TGTTGACTTTATTGCTCACGTCGCG 74 563 2130 Antisense
GGGTCAACTGAACGCTTGGAGCACA 90 495 2221 Antisense
AGTGTCGACGATTTGCTGCATTCTT 644 59 2283 Antisense
TATTCGCCATCTGTTTTCGTGGCCG 236 663 2329 Antisense
CATTCGGAATGCTCCATGGGCTTTT 307 213 2372 Antisense
GTCGTCATCGGAGCGGAGTTGCCGC 265 473 2469 Antisense
Sequence Source Affymetrix Proprietary Database