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[188270_at]

Description T21H3.2 /REP_DB=WormBase Gene ID /WP=CE13900 /GEN=ptr-16 /TR=O16307 /GB=AAB65363.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation
Cluster 6grp_total > 82      4grp_total > 49      6grp_cgc > 74      6grp_cgc_sub > 02_03_04_05      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 464
1 2 3 4 range
A 37.1
(-3)
A 		399.2
(2.9)
A 		402.5
(3)
P 		49
(-2.8)
A 		365
B 10.3
(-2.9)
A 		383.5
(3)
A 		347
(2.4)
M 		2
(-3)
A 		382
C 4.8
(-3)
A 		465.2
(3)
A 		409.2
(2.3)
A 		1.1
(-3)
A 		464
avr 17.4
(-3) 		416
(3) 		386.2
(2.6) 		17.4
(-3) 		399

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 325
1 2 3 4 5 6 range
A 3.7
(-3)
A 		278.3
(3)
A 		195.7
(1.2)
P 		195.4
(1.2)
A 		240.2
(2.2)
P 		67.6
(-1.6)
A 		275
B 61.7
(-3)
A 		328.5
(3)
A 		263.7
(1.5)
A 		255.2
(1.4)
A 		262.3
(1.5)
P 		147
(-1.1)
A 		267
C 32.6
(-3)
A 		318
(3)
M 		191.2
(0.3)
A 		303.3
(2.7)
A 		223.6
(1)
A 		79.3
(-2)
A 		285
avr 32.7
(-3) 		308.3
(3) 		216.9
(1) 		251.3
(1.8) 		242
(1.6) 		98
(-1.6) 		276
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 142
1 2 3 4 range
A 13.5
(-2.6)
A 		86.6
(1.9)
A 		105.2
(3)
P 		7.2
(-3)
A 		98
B 3.3
(-2.8)
A 		94.7
(3)
A 		80.4
(2.1)
M 		0.4
(-3)
A 		94
C 1.6
(-2.9)
A 		133.7
(2.6)
A 		142.6
(3)
A 		0.2
(-3)
A 		142
avr 6.1
(-2.8) 		105
(2.8) 		109.4
(3) 		2.6
(-3) 		107

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 109
1 2 3 4 5 6 range
A 0.7
(-3)
A 		99
(3)
A 		42.6
(-0.4)
P 		49.5
(-0)
A 		72.5
(1.4)
P 		16.4
(-2)
A 		98
B 21.5
(-3)
A 		109.3
(3)
A 		64
(-0.1)
A 		67.6
(0.2)
A 		106.6
(2.8)
P 		54.8
(-0.7)
A 		88
C 12.1
(-3)
A 		97
(3)
M 		48.7
(-0.4)
A 		61
(0.5)
A 		72.3
(1.3)
A 		26.6
(-2)
A 		85
avr 11.4
(-3) 		101.8
(3) 		51.8
(-0.3) 		59.4
(0.2) 		83.8
(1.8) 		32.6
(-1.6) 		90
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188270_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15851
Sequence Type Exemplar sequence
Representative Public ID T21H3.2 NCBI
Target Description T21H3.2 /REP_DB=WormBase Gene ID /WP=CE13900 /GEN=ptr-16 /TR=O16307 /GB=AAB65363.1 /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_070987(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070987 NCBI Caenorhabditis elegans PaTched Related family member (ptr-16) (ptr-16) mRNA, complete cds. 11/11 None
SNAP00000016911 ENSEMBL cdna:SNAP chromosome:CEL140:V:1164683:1174644:1 10/11 None
GENEFINDER00000016917 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:1165541:1174644:1 10/11 None
T21H3.2 ENSEMBL cdna:known chromosome:CEL140:V:1169959:1175502:1 gene:T21H3.2 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
chrV:1169958-1175185(+) 94.78 95.28
Public Domain and Genome References
Gene Title
Gene Symbol ptr-16
Ensembl T21H3.2
Entrez Gene 191750 Entrez gene
SwissProt O16307 EMBL-EBI
WormBase CE13900 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 AAB65363 Patched related family protein 16 [Caenorhabditis elegans] ref|NP_503388.1| PaTched Related family member (ptr-16) [Caenorhabditis elegans] 0.0
blast CAE58022 Hypothetical protein CBG01094 [Caenorhabditis briggsae] 0.0
blast CAA21636 Hypothetical protein Y38F1A.3 [Caenorhabditis elegans] ref|NP_496761.2| PaTched Related family member (ptr-18) [Caenorhabditis elegans] 1.0E-119
blast CAE59402 Hypothetical protein CBG02766 [Caenorhabditis briggsae] 1.0E-108
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_503388.1 10 178-200,207-229,244-266,287-309,319-341,407-424,608-630,637-659,714-736,741-763
T21H3.2 10 178-200,207-229,244-266,287-309,319-341,407-424,608-630,637-659,714-736,741-763
SNAP00000016911 10 45-64,186-208,223-245,252-274,327-349,415-432,616-638,645-667,722-744,749-771
GENEFINDER00000016917 10 28-46,256-278,293-315,322-344,397-419,485-502,686-708,715-737,792-814,819-841
Sequence
Target Sequence 
>C. ELEGANS:188270_AT
ggattctcggtggactttacagcgcacatctcctatcactactaccggaaccccaccagt
tggaccactgatgagcgccttgccgatgcactgaaatctatcggatggccaatgattcag
gccgcaagctcgacagtgttatgcattttcccattgatgttcaacacgagttatatggtt
tgggtgtttgtgaaaacgattcttctggttactgtacttgggttgcttcatggaattata
tttttgccggcgttattgcttacctctggcgacttatctcgtttatttggtggcgactca
atacagccggaaaaacctgaaaaactcggagaaatttcacaggcttccagtttttcaagt
ggaaacagtgagacagctctagtcaaaagcaactcaacagaactgagaaccttaccacag
gaacggggatccgaaaaaactaaaaattttctgaataaaaactcacaaaaaatcaatctt
cagacatttttcggcgcagca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGATTCTCGGTGGACTTTACAGCGC 191 509 2038 Antisense
ATCTCCTATCACTACTACCGGAACC 241 33 2065 Antisense
CCCCACCAGTTGGACCACTGATGAG 13 261 2088 Antisense
CCAATGATTCAGGCCGCAAGCTCGA 705 275 2146 Antisense
GCTCGACAGTGTTATGCATTTTCCC 554 299 2165 Antisense
GGTTACTGTACTTGGGTTGCTTCAT 184 507 2244 Antisense
ATATTTTTGCCGGCGTTATTGCTTA 703 17 2275 Antisense
TTATTGCTTACCTCTGGCGACTTAT 318 677 2290 Antisense
TGGTGGCGACTCAATACAGCCGGAA 116 551 2325 Antisense
ATTTCACAGGCTTCCAGTTTTTCAA 1 17 2371 Antisense
TCTTCAGACATTTTTCGGCGCAGCA 539 615 2514 Antisense
Sequence Source Affymetrix Proprietary Database