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[188419_at]

Description Y65B4BR.3 /REP_DB=WormBase Gene ID /WP=CE24559 /GEN=ptr-21 /TR=Q9N2Z6 /GB=AAF60855.1 /SUBMIT=ST.LOUIS /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 19      4grp_total > 21      6grp_cgc > 88      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 95
1 2 3 4 range
A 78.5
(0.5)
A 		25.6
(-3)
A 		73.3
(0.1)
A 		117.6
(3)
M 		92
B 94.8
(2.2)
P 		106.3
(3)
M 		23.3
(-3)
A 		61.6
(-0.2)
A 		83
C 91.1
(-0.7)
A 		80
(-2.2)
P 		73.8
(-3)
A 		118.7
(3)
P 		45
avr 88.1
(1.4) 		70.6
(-1.1) 		56.8
(-3) 		99.3
(3) 		43

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 67
1 2 3 4 5 6 range
A 76.5
(2)
M 		20.6
(-3)
A 		61.9
(0.7)
A 		69.1
(1.3)
A 		87.5
(3)
P 		37.9
(-1.4)
A 		67
B 77
(3)
P 		46.2
(-1.8)
A 		38.8
(-3)
A 		54.2
(-0.6)
A 		45.1
(-2)
A 		45.3
(-2)
M 		38
C 31.2
(-3)
A 		39.4
(-2.1)
A 		49.2
(-1)
A 		44
(-1.5)
A 		56.7
(-0.1)
A 		83.9
(3)
P 		53
avr 61.6
(2.7) 		35.4
(-3) 		50
(0.2) 		55.8
(1.4) 		63.1
(3) 		55.7
(1.4) 		28
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 25
1 2 3 4 range
A 28.6
(3)
A 		5.5
(-3)
A 		19.2
(0.6)
A 		17.2
(0)
M 		23
B 30.2
(3)
P 		26.2
(2)
M 		5.4
(-3)
A 		13.1
(-1.1)
A 		25
C 30.1
(3)
A 		23
(-1.2)
P 		25.7
(0.4)
A 		20
(-3)
P 		10
avr 29.6
(3) 		18.2
(-2.3) 		16.8
(-3) 		16.8
(-3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 21
1 2 3 4 5 6 range
A 14.1
(-0.9)
M 		7.3
(-3)
A 		13.5
(-1.1)
A 		17.5
(0.2)
A 		26.4
(3)
P 		9.2
(-2.4)
A 		19
B 26.8
(3)
P 		15.4
(-0.9)
A 		9.4
(-3)
A 		14.4
(-1.3)
A 		18.3
(0.1)
A 		16.9
(-0.4)
M 		17
C 11.6
(-2.2)
A 		12
(-2)
A 		12.5
(-1.9)
A 		8.9
(-3)
A 		18.4
(-0)
A 		28.1
(3)
P 		19
avr 17.5
(0.8) 		11.6
(-3) 		11.8
(-2.9) 		13.6
(-1.7) 		21
(3) 		18.1
(1.1) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188419_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2560
Sequence Type Exemplar sequence
Representative Public ID Y65B4BR.3 NCBI
Target Description Y65B4BR.3 /REP_DB=WormBase Gene ID /WP=CE24559 /GEN=ptr-21 /TR=Q9N2Z6 /GB=AAF60855.1 /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_058350(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058350 NCBI Caenorhabditis elegans PaTched Related family member (ptr-21) (ptr-21) mRNA, complete cds. 11/11 None
GENEFINDER00000036998 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:550711:556064:1 11/11 None
Y65B4BR.3 ENSEMBL cdna:known chromosome:CEL140:I:550711:556641:1 gene:Y65B4BR.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000036981 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:550710-556064(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ptr-21
Ensembl Y65B4BR.3
Entrez Gene 191752 Entrez gene
SwissProt Q9N2Z6 EMBL-EBI
WormBase CE24559 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 AAF60855 Patched related family protein 21 [Caenorhabditis elegans] ref|NP_490751.1| PaTched Related family member (ptr-21) [Caenorhabditis elegans] 0.0
blast CAE61292 Hypothetical protein CBG05116 [Caenorhabditis briggsae] 0.0
blast AAB42308 Patched related family protein 5 [Caenorhabditis elegans] ref|NP_510810.3| PaTched Related family member (ptr-5) [Caenorhabditis elegans] 1.0E-166
Protein Domains
Database ID Description E-Value
Pfam IPR003392 EMBL-EBI Patched family 6.7E-57
Pfam IPR003392 EMBL-EBI Patched family 2.9E-85
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_490751.1 12 49-71,291-313,323-345,358-380,395-417,424-446,483-505,697-719,723-745,752-774,811-833,840-862
Y65B4BR.3 12 49-71,291-313,323-345,358-380,395-417,424-446,483-505,697-719,723-745,752-774,811-833,840-862
GENEFINDER00000036998 12 49-71,291-313,323-345,358-380,395-417,424-446,483-505,697-719,723-745,752-774,811-833,840-862
Sequence
Target Sequence 
>C. ELEGANS:188419_AT
gaatgccctagtcaccttgggatgtatggctgccgtctgtgtagtcttcatccgcaaccc
cctctcagttggcctagcgaccgcttcgattttatccatctccattggagtaactggata
cctgtgcttctgggacttggatctggaccctgtgaccctgtgcgcagtaattgtttcaat
tggaatgtccgttgactttgttgcccatgtggcctgtcactatcaggtcaggtataaaga
gttcgaggagaaaggagtattgaagaggattgagatgaaaactcccgaatctcgagtcgt
caactcgctgtccaatgtgctctggccaatggtccagtcggcttcttcaactcttctatg
tgtacttccacttggtattctacagaactacctcccaatggttttcgtgaaaaccatcct
gctcgtcgtgatctggggaatgttccacggtcttgtgctgctcccgtgcattcttgcaca
gtttcccctgtctgtgttcaacaagacgttcgccgacttgttgttcggcagaacatcctc
ttcgtcttgctcttcggagtccgattcggaaaccgacaccggtgatgctcaggag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAATGCCCTAGTCACCTTGGGATGT 279 329 2115 Antisense
GATGTATGGCTGCCGTCTGTGTAGT 244 409 2135 Antisense
TAGCGACCGCTTCGATTTTATCCAT 612 649 2189 Antisense
AATGTCCGTTGACTTTGTTGCCCAT 494 157 2298 Antisense
GAAAACTCCCGAATCTCGAGTCGTC 33 355 2391 Antisense
TGCTCTGGCCAATGGTCCAGTCGGC 84 581 2432 Antisense
TCAACTCTTCTATGTGTACTTCCAC 360 631 2461 Antisense
GAACTACCTCCCAATGGTTTTCGTG 691 347 2499 Antisense
TCCTGCTCGTCGTGATCTGGGGAAT 432 593 2531 Antisense
GACGTTCGCCGACTTGTTGTTCGGC 454 377 2619 Antisense
AACCGACACCGGTGATGCTCAGGAG 495 145 2685 Antisense
Sequence Source Affymetrix Proprietary Database