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[187935_s_at]

Description F44F4.4 /REP_DB=WormBase Gene ID /WP=CE01000 /GEN=ptr-8 /TR=Q20404 /GB=CAA85455.1 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 20      6grp_high1_10_10 > 05      4grp_highest_8_8 > 32      4grp_high_8_8 > 51      6grp_highest_nonorm > 10      6grp_total > 04      4grp_total > 52      6grp_highest_sub > De      6grp_cgc > 31      6grp_high1_sub > De      6grp_cgc_sub > De      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 903
1 2 3 4 range
A 1104.3
(3)
P 		942.6
(1.9)
P 		860.7
(1.3)
P 		239.3
(-3)
P 		865
B 966.5
(2.5)
P 		1027.3
(3)
P 		920.4
(2.1)
P 		275.1
(-3)
P 		752
C 1033.3
(2.7)
P 		1077.3
(3)
P 		1043.3
(2.8)
P 		201
(-3)
P 		876
avr 1034.7
(3) 		1015.7
(2.9) 		941.5
(2.3) 		238.5
(-3) 		796

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1339
1 2 3 4 5 6 range
A 2013.8
(3)
P 		1672.9
(1.5)
P 		1187.5
(-0.7)
P 		1240.1
(-0.5)
P 		1202.8
(-0.6)
P 		680.5
(-3)
P 		1333
B 2019.9
(3)
P 		1567.2
(1)
P 		1261.4
(-0.4)
P 		1334.4
(-0.1)
P 		996.8
(-1.6)
P 		688.6
(-3)
P 		1331
C 1862.4
(3)
P 		1497.6
(1)
P 		1494.4
(1)
P 		1489.4
(0.9)
P 		1046.8
(-1.5)
P 		772.5
(-3)
P 		1090
avr 1965.4
(3) 		1579.2
(1.1) 		1314.4
(-0.1) 		1354.6
(0.1) 		1082.1
(-1.2) 		713.9
(-3) 		1252
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 368
1 2 3 4 range
A 402.1
(3)
P 		204.6
(-0.2)
P 		225
(0.1)
P 		35
(-3)
P 		367
B 308.2
(3)
P 		253.7
(1.7)
P 		213.3
(0.7)
P 		58.6
(-3)
P 		250
C 342
(2.6)
P 		309.7
(2)
P 		363.6
(3)
P 		33.9
(-3)
P 		330
avr 350.8
(3) 		256
(1.2) 		267.3
(1.4) 		42.5
(-3) 		308

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 537
1 2 3 4 5 6 range
A 371.2
(-0.1)
P 		595
(3)
P 		258.6
(-1.7)
P 		314.5
(-0.9)
P 		362.9
(-0.2)
P 		165.7
(-3)
P 		429
B 702.8
(3)
P 		521.6
(0.6)
P 		306.3
(-2.3)
P 		353.4
(-1.7)
P 		405
(-1)
P 		256.8
(-3)
P 		446
C 690.3
(3)
P 		457
(-0.2)
P 		380.4
(-1.3)
P 		299.5
(-2.4)
P 		338.7
(-1.9)
P 		258.6
(-3)
P 		432
avr 588.1
(3) 		524.5
(1.9) 		315.1
(-1.5) 		322.5
(-1.4) 		368.9
(-0.6) 		227
(-3) 		361
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187935_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.3819
Sequence Type Exemplar sequence
Representative Public ID F44F4.4 NCBI
Target Description F44F4.4 /REP_DB=WormBase Gene ID /WP=CE01000 /GEN=ptr-8 /TR=Q20404 /GB=CAA85455.1 /SUBMIT=HINXTON /CHR=2 /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_063942(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063942 NCBI Caenorhabditis elegans PaTched Related family member (ptr-8) (ptr-8) mRNA, complete cds. 11/11 None
SNAP00000037181 ENSEMBL cdna:SNAP chromosome:CEL140:II:10889196:10893069:1 11/11 None
GENEFINDER00000037192 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:10889196:10893069:1 11/11 None
F44F4.4 ENSEMBL cdna:known chromosome:CEL140:II:10889190:10893177:1 gene:F44F4.4 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
chrII:10889192-10893066(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ptr-8
Ensembl F44F4.4
Entrez Gene 174678 Entrez gene
SwissProt Q20404 EMBL-EBI
WormBase CE01000 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 CAA85455 Hypothetical protein F44F4.4 [Caenorhabditis elegans] ref|NP_496343.1| PaTched Related family member (ptr-8) [Caenorhabditis elegans] 0.0
blast CAE73236 Hypothetical protein CBG20645 [Caenorhabditis briggsae] 0.0
blast AAF39911 Patched related family protein 12, isoform a [Caenorhabditis elegans] ref|NP_001021559.1| PaTched Related family member (ptr-12) [Caenorhabditis elegans] 1.0E-170
Protein Domains
Database ID Description E-Value
Pfam IPR003392 EMBL-EBI Patched family 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_496343.1 9 21-43,267-289,318-340,375-397,464-486,687-709,716-738,742-764,850-872
F44F4.4 9 21-43,267-289,318-340,375-397,464-486,687-709,716-738,742-764,850-872
SNAP00000037181 9 21-43,267-289,318-340,375-397,464-486,687-709,716-738,742-764,850-872
GENEFINDER00000037192 9 21-43,267-289,318-340,375-397,464-486,687-709,716-738,742-764,850-872
Sequence
Target Sequence 
>C. ELEGANS:187935_S_AT
gtgacgtggcaaactacgctggccacattcatcttcgtttcacttgtctgcttcttgttc
atctcagatatcctgacggttatgatagtgtcagttgcaacattggttacttctgttgga
gtattcggttatctatcgttattgggtgtcacactggatccggttatcatgtcgattgca
attatgtgcattggattctcggttgacattccggctcatgtcgcattccatttctatgca
gcaaaagccaagaagcatgcttcatctcatagtcaaccatctccccatcaagtaacatca
cctgatattgtacattcaacatcaaccacctcctcatctgattcatcaatttcaactcca
aattctttcgaaacaaacctgaattttgctttatccagtgtcggatttccagttattcaa
gccggagtttcaactgatttctgtgctcttccacttggatttatggaactttacatggca
aaaatgttcgcattatctctgactctctgcgtatcgttatct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTGACGTGGCAAACTACGCTGGCCA 63 483 2074 Antisense
CACATTCATCTTCGTTTCACTTGTC 129 197 2097 Antisense
GATTCTCGGTTGACATTCCGGCTCA 297 431 2267 Antisense
TGTCGCATTCCATTTCTATGCAGCA 366 557 2292 Antisense
GCATGCTTCATCTCATAGTCAACCA 212 311 2328 Antisense
CTCCCCATCAAGTAACATCACCTGA 207 235 2354 Antisense
CACCTCCTCATCTGATTCATCAATT 597 201 2400 Antisense
GAATTTTGCTTTATCCAGTGTCGGA 433 323 2454 Antisense
GTTTCAACTGATTTCTGTGCTCTTC 677 449 2500 Antisense
AATGTTCGCATTATCTCTGACTCTC 16 165 2556 Antisense
TCTGACTCTCTGCGTATCGTTATCT 208 609 2571 Antisense
Sequence Source Affymetrix Proprietary Database