[Home] | [Total List]

[171956_s_at]

Description AV181769_rc /REP_DB=TREMBL Accession /GB=AV181769 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk624f1 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 09      6grp_high1_10_10 > 90      4grp_highest_8_8 > 12      4grp_high_8_8 > 39      6grp_highest_nonorm > 57      6grp_total > 0      4grp_total > 40      6grp_total_sub > Hat      6grp_cgc > 64      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1801
1 2 3 4 range
A 1847.4
(-3)
P 		3288
(3)
P 		3229.2
(2.8)
P 		2654.7
(0.4)
P 		1441
B 1946.5
(-3)
P 		3059.3
(0.9)
P 		3648.5
(3)
P 		3380
(2.1)
P 		1702
C 1895.4
(-3)
P 		2775.4
(0.8)
P 		3289.4
(3)
P 		2717.8
(0.5)
P 		1394
avr 1896.4
(-3) 		3040.9
(1.6) 		3389
(3) 		2917.5
(1.1) 		1493

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1852
1 2 3 4 5 6 range
A 2332.6
(-0.7)
P 		3085.2
(1.8)
P 		2109.2
(-1.5)
P 		1665.3
(-3)
P 		3424.6
(3)
P 		2435.7
(-0.4)
P 		1759
B 2060.5
(-3)
P 		3502.3
(3)
P 		2559.7
(-0.9)
P 		2798.4
(0.1)
P 		2608.4
(-0.7)
P 		2725.1
(-0.2)
P 		1442
C 1886
(-3)
P 		3517.4
(3)
P 		2117.9
(-2.1)
P 		2840.1
(0.5)
P 		2494.6
(-0.8)
P 		2514.8
(-0.7)
P 		1631
avr 2093
(-3) 		3368.3
(3) 		2262.3
(-2.2) 		2434.6
(-1.4) 		2842.5
(0.5) 		2558.5
(-0.8) 		1275
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 758
1 2 3 4 range
A 672.6
(0.7)
P 		713.7
(1.3)
P 		844.2
(3)
P 		388.6
(-3)
P 		456
B 620.7
(-3)
P 		755.6
(0.6)
P 		845.4
(3)
P 		720.3
(-0.3)
P 		225
C 627.4
(-1.5)
P 		797.9
(-0)
P 		1146.4
(3)
P 		458.3
(-3)
P 		688
avr 640.2
(-1.3) 		755.7
(0.3) 		945.3
(3) 		522.4
(-3) 		423

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 743
1 2 3 4 5 6 range
A 430
(-2.9)
P 		1097.3
(3)
P 		459.3
(-2.7)
P 		422.4
(-3)
P 		1033.4
(2.4)
P 		593
(-1.5)
P 		675
B 717
(-1.9)
P 		1165.8
(3)
P 		621.6
(-3)
P 		741.2
(-1.7)
P 		1059.8
(1.8)
P 		1016.2
(1.4)
P 		544
C 699.1
(-1.2)
P 		1073.3
(3)
P 		539
(-3)
P 		571.1
(-2.6)
P 		807.2
(0)
P 		841.8
(0.4)
P 		534
avr 615.4
(-2.2) 		1112.1
(3) 		540
(-3) 		578.2
(-2.6) 		966.8
(1.5) 		817
(-0.1) 		572
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 171956_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27808
Sequence Type Exemplar sequence
Representative Public ID AV181769 NCBI
Target Description AV181769_rc /REP_DB=TREMBL Accession /GB=AV181769 /FEA=Transcript Cluster /DEF=Caenorhabditis elegans cDNA clone:yk624f1 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
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_061202(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_061202 NCBI Caenorhabditis elegans PaTched Related family member (ptr-23) (ptr-23) mRNA, complete cds. 11/11 None
ZK270.1 ENSEMBL cdna:known chromosome:CEL140:I:14917358:14921241:1 gene:ZK270.1 11/11 A 
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
chrI:14920718-14920969(+) 66.04 66.04
Public Domain and Genome References
Gene Title
Gene Symbol ptr-23
Ensembl ZK270.1
Entrez Gene 173362 Entrez gene
SwissProt O02246 EMBL-EBI
WormBase CE15305 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 CAB05002 Hypothetical protein ZK270.1 [Caenorhabditis elegans] emb|CAB04167.1| Hypothetical protein ZK270.1 [Caenorhabditis elegans] ref|NP_493603.1| PaTched Related family member (ptr-23) [Caenorhabditis elegans] 0.0
blast CAE72568 Hypothetical protein CBG19753 [Caenorhabditis briggsae] 0.0
blast CAE60539 Hypothetical protein CBG04166 [Caenorhabditis briggsae] 0.0
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_493603.1 10 50-72,315-337,347-369,376-398,466-488,546-568,782-801,806-828,886-908,915-937
ZK270.1 10 50-72,315-337,347-369,376-398,466-488,546-568,782-801,806-828,886-908,915-937
Sequence
Target Sequence 
>C. ELEGANS:171956_S_AT
acctattaatctcatgacacaaacctctgttccatttgagtttcccgtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ACCTATTAATCTCATGACACAAACC 579 85 174 Antisense
ATTAATCTCATGACACAAACCTCTG 649 11 178 Antisense
ATCTCATGACACAAACCTCTGTTCC 40 33 182 Antisense
CTCATGACACAAACCTCTGTTCCAT 378 229 184 Antisense
CATGACACAAACCTCTGTTCCATTT 89 211 186 Antisense
ATGACACAAACCTCTGTTCCATTTG 521 43 187 Antisense
GACACAAACCTCTGTTCCATTTGAG 380 359 189 Antisense
CACAAACCTCTGTTCCATTTGAGTT 568 193 191 Antisense
CAAACCTCTGTTCCATTTGAGTTTC 163 193 193 Antisense
ACCTCTGTTCCATTTGAGTTTCCCG 71 89 196 Antisense
CTCTGTTCCATTTGAGTTTCCCGTT 332 231 198 Antisense
Sequence Source Affymetrix Proprietary Database