[Home] | [Total List]

[188085_s_at]

Description R09H10.4 /REP_DB=WormBase Gene ID /WP=CE12664 /GEN=ptr-14 /TR=Q21883 /GB=CAB00873.1 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 65      6grp_high1_10_10 > 56      4grp_highest_8_8 > 11      4grp_high_8_8 > 55      6grp_highest_nonorm > 86      6grp_total > 57      4grp_total > 48      6grp_cgc > 37      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 817
1 2 3 4 range
A 599.3
(-3)
P 		872.3
(-0.5)
P 		1267.4
(3)
P 		601.7
(-3)
P 		668
B 525
(-3)
P 		1084.2
(2.3)
P 		1156.2
(3)
P 		692.6
(-1.4)
P 		631
C 508.6
(-3)
P 		1068.1
(1.1)
P 		1325.1
(3)
P 		636.4
(-2.1)
P 		817
avr 544.3
(-3) 		1008.2
(0.9) 		1249.6
(3) 		643.6
(-2.2) 		705

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 690
1 2 3 4 5 6 range
A 940.7
(-1.8)
P 		1225.1
(1.4)
P 		829.4
(-3)
P 		940.9
(-1.8)
P 		834.2
(-2.9)
P 		1374.4
(3)
P 		545
B 879.3
(-0.5)
P 		1049
(1.7)
P 		684.2
(-3)
P 		923.8
(0.1)
P 		744.9
(-2.2)
P 		1153.6
(3)
P 		469
C 862.7
(-0.8)
P 		947.4
(0.3)
P 		1009.9
(1.1)
P 		838.6
(-1.1)
P 		688.4
(-3)
P 		1164.4
(3)
P 		476
avr 894.2
(-1.3) 		1073.8
(1) 		841.2
(-1.9) 		901.1
(-1.2) 		755.8
(-3) 		1230.8
(3) 		475
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 374
1 2 3 4 range
A 218.2
(0.2)
P 		189.3
(-0.5)
P 		331.3
(3)
P 		88.1
(-3)
P 		243
B 167.4
(-2)
P 		267.8
(3)
P 		267.9
(3)
P 		147.6
(-3)
P 		120
C 168.4
(-2)
P 		307.1
(0.4)
P 		461.8
(3)
P 		107.3
(-3)
P 		355
avr 184.7
(-1.2) 		254.7
(0.5) 		353.7
(3) 		114.3
(-3) 		239

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 270
1 2 3 4 5 6 range
A 173.4
(-3)
P 		435.7
(3)
P 		180.6
(-2.8)
P 		238.6
(-1.5)
P 		251.7
(-1.2)
P 		334.6
(0.7)
P 		262
B 305.9
(0.2)
P 		349.2
(1.2)
P 		166.1
(-3)
P 		244.7
(-1.2)
P 		302.7
(0.1)
P 		430.2
(3)
P 		264
C 319.8
(1.1)
P 		289.1
(0.3)
P 		257
(-0.6)
P 		168.6
(-3)
P 		222.8
(-1.5)
P 		389.8
(3)
P 		221
avr 266.4
(-0.9) 		358
(2.1) 		201.2
(-3) 		217.3
(-2.5) 		259.1
(-1.1) 		384.9
(3) 		184
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 188085_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8842
Sequence Type Exemplar sequence
Representative Public ID R09H10.4 NCBI
Target Description R09H10.4 /REP_DB=WormBase Gene ID /WP=CE12664 /GEN=ptr-14 /TR=Q21883 /GB=CAB00873.1 /SUBMIT=HINXTON /CHR=4 /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_069562(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069562 NCBI Caenorhabditis elegans PaTched Related family member (ptr-14) (ptr-14) mRNA, complete cds. 11/11 None
SNAP00000043242 ENSEMBL cdna:SNAP chromosome:CEL140:IV:10617593:10620459:1 11/11 None
GENEFINDER00000043247 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:10615473:10621663:1 11/11 None
R09H10.4 ENSEMBL cdna:known chromosome:CEL140:IV:10615473:10620927:1 gene:R09H10.4 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
chrIV:10615478-10620696(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol ptr-14
Ensembl R09H10.4
Entrez Gene 177951 Entrez gene
SwissProt Q21883 EMBL-EBI
WormBase CE12664 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 CAB00873 Hypothetical protein R09H10.4 [Caenorhabditis elegans] ref|NP_501963.1| PaTched Related family member (ptr-14) [Caenorhabditis elegans] 0.0
blast CAE60748 Hypothetical protein CBG04434 [Caenorhabditis briggsae] 0.0
blast CAE62788 Hypothetical protein CBG06961 [Caenorhabditis briggsae] 1.0E-154
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
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501963.1 11 33-52,255-277,314-336,366-388,403-425,458-480,678-700,707-729,734-756,777-799,814-836
R09H10.4 11 33-52,255-277,314-336,366-388,403-425,458-480,678-700,707-729,734-756,777-799,814-836
SNAP00000043242 10 155-177,214-236,266-288,303-325,358-380,578-600,607-629,634-656,677-699,714-736
GENEFINDER00000043247 12 33-52,255-277,314-336,366-388,403-425,458-480,678-700,707-729,734-756,777-799,814-836,962-984
Sequence
Target Sequence 
>C. ELEGANS:188085_S_AT
aaacaattcttccggcaacaatctcgacatctgtttgcactctcatatgtatgatgatcg
tctgtttcttgttcatgtacaacgtcttcaccgtttttgtagcgaccttggccatcacct
ctatttgcataggtgtgttcggatttctatcaatgtggggaatcgatttggatccaatat
cgatggcttgcttaatcatgagtattggattttcggtggatttccctgctcatattacat
tccattattttagagaaggacttcatgatccacaatcaacaccagcaaagagagttgcaa
gatccctcgccgctataggatttccacttttacaatgtggtttatcaacgattctattcg
ttctttgcttactttttgttccaacctatatgggcgaagttttcgtgaagacaatgatcc
ttgtggtgacactgggtctcatccatgggctttttattgttcctgcattcctatgtgctt
tcacagcgatacatcaaacttgcttctcatcttca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAACAATTCTTCCGGCAACAATCTC 41 129 2039 Antisense
CAATCTCGACATCTGTTTGCACTCT 445 181 2057 Antisense
GATCGTCTGTTTCTTGTTCATGTAC 638 417 2094 Antisense
TCTTCACCGTTTTTGTAGCGACCTT 656 613 2123 Antisense
TGGCCATCACCTCTATTTGCATAGG 290 545 2147 Antisense
TTCCCTGCTCATATTACATTCCATT 600 697 2260 Antisense
GATTCTATTCGTTCTTTGCTTACTT 25 433 2388 Antisense
TTGTGGTGACACTGGGTCTCATCCA 420 707 2459 Antisense
GGCTTTTTATTGTTCCTGCATTCCT 498 537 2486 Antisense
CCTGCATTCCTATGTGCTTTCACAG 339 267 2500 Antisense
ACATCAAACTTGCTTCTCATCTTCA 595 105 2529 Antisense
Sequence Source Affymetrix Proprietary Database