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[188326_at]

Description Y18D10A.7 /REP_DB=WormBase Gene ID /WP=CE21403 /GEN=ptr-17 /TR=Q9XW22 /GB=CAA22312.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_total > 12      4grp_total > 50      6grp_cgc > 40      6grp_total_sub > Hat      4grp_rule_based > L2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 153
1 2 3 4 range
A 98
(-2)
A 		225.7
(3)
A 		195.2
(1.8)
A 		72.5
(-3)
A 		153
B 85.8
(-2.4)
A 		154.7
(2.1)
A 		169.2
(3)
A 		75.7
(-3)
A 		94
C 111.8
(-3)
A 		210.6
(3)
A 		153.2
(-0.5)
A 		146.6
(-0.9)
A 		99
avr 98.5
(-3) 		197
(3) 		172.5
(1.5) 		98.3
(-3) 		99

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 135
1 2 3 4 5 6 range
A 171.6
(3)
A 		143.4
(1.4)
A 		100.7
(-1)
A 		122.1
(0.2)
A 		119.6
(0.1)
A 		64.7
(-3)
A 		107
B 127.9
(0.1)
A 		169.3
(3)
A 		122.1
(-0.3)
A 		114.3
(-0.8)
A 		82.8
(-3)
A 		93
(-2.3)
A 		87
C 92.4
(-0.4)
A 		167.8
(3)
A 		113.8
(0.5)
A 		128.7
(1.2)
A 		36.5
(-3)
A 		69.9
(-1.5)
A 		131
avr 130.6
(0.9) 		160.2
(3) 		112.2
(-0.4) 		121.7
(0.3) 		79.6
(-2.7) 		75.9
(-3) 		84
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 50
1 2 3 4 range
A 35.7
(0.7)
A 		49
(2.7)
A 		51
(3)
A 		10.6
(-3)
A 		40
B 27.4
(-0.1)
A 		38.2
(2.7)
A 		39.2
(3)
A 		16.1
(-3)
A 		23
C 37
(-0.9)
A 		60.6
(3)
A 		53.4
(1.8)
A 		24.7
(-3)
A 		36
avr 33.4
(0) 		49.3
(3) 		47.9
(2.7) 		17.1
(-3) 		32

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 45
1 2 3 4 5 6 range
A 31.6
(-0.3)
A 		51
(3)
A 		21.9
(-2)
A 		31
(-0.4)
A 		36.1
(0.5)
A 		15.8
(-3)
A 		35
B 44.5
(0.3)
A 		56.4
(3)
A 		29.6
(-3)
A 		30.3
(-2.8)
A 		33.7
(-2.1)
A 		34.7
(-1.9)
A 		27
C 34.3
(0.4)
A 		51.2
(3)
A 		29
(-0.4)
A 		25.9
(-0.9)
A 		11.8
(-3)
A 		23.4
(-1.2)
A 		39
avr 36.8
(-0.4) 		52.9
(3) 		26.8
(-2.5) 		29.1
(-2) 		27.2
(-2.4) 		24.6
(-3) 		28
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188326_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.2432
Sequence Type Exemplar sequence
Representative Public ID Y18D10A.7 NCBI
Target Description Y18D10A.7 /REP_DB=WormBase Gene ID /WP=CE21403 /GEN=ptr-17 /TR=Q9XW22 /GB=CAA22312.1 /SUBMIT=HINXTON /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_001026561(11), NM_001026559(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001026561 NCBI Caenorhabditis elegans PaTched Related family member (ptr-17) (ptr-17) mRNA, complete cds. 11/11 None
NM_001026559 NCBI Caenorhabditis elegans PaTched Related family member (ptr-17) (ptr-17) mRNA, complete cds. 10/11 None
GENEFINDER00000000441 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:12842786:12851354:1 11/11 None
SNAP00000000413 ENSEMBL cdna:SNAP chromosome:CEL140:I:12849436:12856074:1 11/11 None
Y18D10A.7a ENSEMBL cdna:known chromosome:CEL140:I:12842786:12851329:1 gene:Y18D10A.7 10/11 None
Y18D10A.7c ENSEMBL cdna:known chromosome:CEL140:I:12842786:12851354:1 gene:Y18D10A.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
NM_001026560 4/11 Cross Hyb Matching Probes None
Y18D10A.7b.2 2/11 Cross Hyb Matching Probes None
Y18D10A.7b.1 4/11 Cross Hyb Matching Probes None
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
173150 3 2 NM_001026559 188326_at (10)
NM_001026561 188326_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:12842716-12851285(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y18D10A.7
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAI59121 Hypothetical protein Y18D10A.7c [Caenorhabditis elegans] ref|NP_001021732.1| PaTched Related family member (ptr-17) [Caenorhabditis elegans] 0.0
blast CAA22312 Hypothetical protein Y18D10A.7a [Caenorhabditis elegans] ref|NP_001021730.1| PaTched Related family member (ptr-17) [Caenorhabditis elegans] 0.0
blast CAI59120 Hypothetical protein Y18D10A.7b [Caenorhabditis elegans] ref|NP_001021731.1| PaTched Related family member (ptr-17) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR003392 EMBL-EBI Patched family 1.9E-117
Pfam IPR003392 EMBL-EBI Patched family 4.6E-10
Pfam IPR003392 EMBL-EBI Patched family 9.5E-61
Pfam IPR003392 EMBL-EBI Patched family 1.9E-10
Pfam IPR003392 EMBL-EBI Patched family 7.6E-119
Pfam IPR003392 EMBL-EBI Patched family 4.6E-10
Pfam IPR003392 EMBL-EBI Patched family 9.5E-61
Pfam IPR003392 EMBL-EBI Patched family 1.9E-59
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001021732.1 12 46-68,290-308,339-361,406-428,438-460,546-565,570-592,767-784,789-811,818-840,863-885,898-917
NP_001021730.1 7 46-68,290-308,339-361,406-428,438-460,546-565,768-790
Y18D10A.7a 7 46-68,290-308,339-361,406-428,438-460,546-565,768-790
Y18D10A.7c 12 46-68,290-308,339-361,406-428,438-460,546-565,570-592,767-784,789-811,818-840,863-885,898-917
GENEFINDER00000000441 12 46-68,290-308,339-361,406-428,438-460,535-554,559-581,756-773,778-800,807-829,852-874,887-906
SNAP00000000413 5 123-140,145-167,174-196,219-241,253-272
Sequence
Target Sequence 
>C. ELEGANS:188326_AT
tttctattgctgtcatggttccggtcgcactgctcttcattccacaaccactctgctcag
ttattattggcttaaatatcgcctccatcgcattcggagtcatcggaaccatgtccttcc
ttggtgtcagcctggatgccacgtcaatgattactgtagcaatgagtgtcggattttcag
ttgatttcgccgcccacgtctcttacgcgtacatgacagaatctggagcccaaattccgg
gaaaaagtgcaatttattcacgattttgtcacactttgggtacaatcggctggccagtca
cacaggcttcagtttccgtacttttgggtgtttcttcgctgtatttggtggatagttatg
tggttcaaacgtgttttaggactgttgtattggttattttatttggtaccacccacgcat
tggtcttccttccacttcttctaatgaactg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTCTATTGCTGTCATGGTTCCGGT 54 669 2318 Antisense
CCACAACCACTCTGCTCAGTTATTA 674 273 2359 Antisense
TGGCTTAAATATCGCCTCCATCGCA 65 547 2385 Antisense
CGGAGTCATCGGAACCATGTCCTTC 249 243 2412 Antisense
GCCTGGATGCCACGTCAATGATTAC 364 283 2447 Antisense
CACGTCTCTTACGCGTACATGACAG 410 199 2512 Antisense
TGGGTACAATCGGCTGGCCAGTCAC 673 553 2594 Antisense
GGCCAGTCACACAGGCTTCAGTTTC 486 543 2609 Antisense
GTGTTTCTTCGCTGTATTTGGTGGA 375 483 2645 Antisense
TATTTTATTTGGTACCACCCACGCA 211 663 2712 Antisense
TCCTTCCACTTCTTCTAATGAACTG 485 591 2744 Antisense
Sequence Source Affymetrix Proprietary Database