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[186386_s_at]

Description VF36H2L.1 /REP_DB=WormBase Gene ID /WP=CE16526 /TR=O45876 /GB=CAA16282.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 92      6grp_high1_10_10 > 49      4grp_highest_8_8 > 47      4grp_high_8_8 > 20      6grp_highest_nonorm > 82      6grp_total > 39      4grp_total > 20      6grp_highest_sub > Cu      6grp_cgc > 09      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 231
1 2 3 4 range
A 280.9
(3)
P 		243.3
(1.3)
P 		148.5
(-3)
P 		268.6
(2.4)
P 		132
B 283.3
(0.4)
P 		263.1
(-0.2)
P 		160.3
(-3)
P 		379.5
(3)
P 		219
C 204.9
(-2.8)
P 		199.6
(-3)
P 		217.7
(-2.3)
P 		348.7
(3)
P 		149
avr 256.4
(0.1) 		235.3
(-0.7) 		175.5
(-3) 		332.3
(3) 		157

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 280
1 2 3 4 5 6 range
A 371.7
(2.4)
P 		224.3
(-1.9)
P 		188.8
(-3)
P 		370.2
(2.4)
P 		390.3
(3)
P 		372.1
(2.5)
P 		202
B 403.7
(2.5)
P 		285.6
(-0.3)
P 		169
(-3)
P 		303.7
(0.1)
P 		427.2
(3)
P 		422.3
(2.9)
P 		258
C 449
(3)
P 		278.5
(-1.4)
P 		216.2
(-3)
P 		262.2
(-1.8)
P 		327.4
(-0.1)
P 		374.2
(1.1)
P 		233
avr 408.1
(3) 		262.8
(-1) 		191.3
(-3) 		312
(0.3) 		381.6
(2.3) 		389.5
(2.5) 		217
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 65
1 2 3 4 range
A 102.3
(3)
P 		52.8
(-1.7)
P 		38.8
(-3)
P 		39.3
(-3)
P 		64
B 90.3
(3)
P 		65
(0.1)
P 		37.2
(-3)
P 		80.9
(1.9)
P 		53
C 67.8
(0.4)
P 		57.4
(-3)
P 		75.9
(3)
P 		58.8
(-2.5)
P 		19
avr 86.8
(3) 		58.4
(-1.7) 		50.6
(-3) 		59.7
(-1.5) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 133
1 2 3 4 5 6 range
A 68.5
(-0.9)
P 		79.8
(0)
P 		41.1
(-3)
P 		93.9
(1.1)
P 		117.8
(3)
P 		90.6
(0.9)
P 		77
B 140.5
(1.5)
P 		95.1
(-0.6)
P 		41
(-3)
P 		80.4
(-1.2)
P 		173.6
(3)
P 		157.5
(2.3)
P 		133
C 166.4
(3)
P 		85
(-1.3)
P 		55
(-2.9)
P 		52.7
(-3)
P 		105.9
(-0.2)
P 		125.3
(0.8)
P 		114
avr 125.1
(2.5) 		86.6
(-0.2) 		45.7
(-3) 		75.7
(-0.9) 		132.4
(3) 		124.5
(2.5) 		87
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 186386_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1768
Sequence Type Exemplar sequence
Representative Public ID VF36H2L.1 NCBI
Target Description VF36H2L.1 /REP_DB=WormBase Gene ID /WP=CE16526 /TR=O45876 /GB=CAA16282.1 /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_060068(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060068 NCBI Caenorhabditis elegans Anterior PHarynx defective family member (aph-1) (aph-1) mRNA, complete cds. 11/11 None
GENEFINDER00000043678 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9240366:9241684:-1 11/11 None
SNAP00000043676 ENSEMBL cdna:SNAP chromosome:CEL140:I:9240378:9241681:-1 11/11 None
VF36H2L.1 ENSEMBL cdna:known chromosome:CEL140:I:9240195:9241681:-1 gene:VF36H2L.1 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
chrI:9240296-9241612(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol aph-1
Ensembl VF36H2L.1
Entrez Gene 172747 Entrez gene
SwissProt O45876 EMBL-EBI
WormBase CE16526 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATGENOME1:15412_AT expressed protein at
ATH1-121501:263247_AT expressed protein at
DROSOPHILA_2:1633763_AT anterior pharynx defective 1 dm
DROSGENOME1:153748_AT anterior pharynx defective 1 dm
MOUSE430_2:1429466_S_AT anterior pharynx defective 1c homolog (C. elegans) mm
MOE430B:1429466_S_AT anterior pharynx defective 1c homolog (C. elegans) mm
MG-U74BV2:163759_AT anterior pharynx defective 1c homolog (C. elegans) mm
Protein Similarities
Method ID Description E-Value
blast CAA16282 Hypothetical protein VF36H2L.1 [Caenorhabditis elegans] ref|NP_492469.1| Anterior PHarynx defective family member (aph-1) [Caenorhabditis elegans] sp|O45876|APH1_CAEEL Gamma-secretase subunit aph-1 (Anterior-pharynx-defective protein 1) (Presenilin enhancer protein 1) 1.0E-158
blast CAA16282 Hypothetical protein VF36H2L.1 [Caenorhabditis elegans] ref|NP_492469.1| Anterior PHarynx defective family member (aph-1) [Caenorhabditis elegans] sp|O45876|APH1_CAEEL Gamma-secretase subunit aph-1 (Anterior-pharynx-defective protein 1) (Presenilin enhancer protein 1) 1.0E-156
blast CAE70374 Hypothetical protein CBG16933 [Caenorhabditis briggsae] 1.0E-134
blast CAE70374 Hypothetical protein CBG16933 [Caenorhabditis briggsae] 1.0E-133
blast CAE72328 Hypothetical protein CBG19473 [Caenorhabditis briggsae] 5.0E-31
Protein Domains
Database ID Description E-Value
Pfam IPR009294 EMBL-EBI Aph-1 1.0E-126
Pfam IPR009294 EMBL-EBI Aph-1 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492469.1 7 4-25,32-54,64-86,120-142,169-191,198-220,230-252
VF36H2L.1 7 4-25,32-54,64-86,120-142,169-191,198-220,230-252
GENEFINDER00000043678 7 4-26,33-55,65-87,121-143,170-192,199-221,231-253
SNAP00000043676 7 4-25,32-54,64-86,120-142,169-191,198-220,230-252
Sequence
Target Sequence 
>C. ELEGANS:186386_S_AT
ggacaaatctcagttgctccaggagtcagcgatcttcataatgctcgtcacatgcttgca
cttgtctgtggtctcggaatgggtgtaatctcagcacttttctacacaatgaacgcattt
gcaatcttctcgggacccggaaccatcggacttccaaatgctcttaaaactggagaaatt
gacacaaatcgtgctgggaaataccttcccctatgttacaccctttctgcaatcttatta
actctatttcatgttacatggactattatggtttgggactcgtgccataaaattggaagg
ataccttcagcttttgtgcctggagctgccgcggttgtttcacatttgttggtgacattc
ttgagttctctcaactctcgtggcttccatgtactcgtctttgccgttcaattcctgatt
cttctcattt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGACAAATCTCAGTTGCTCCAGGAG 150 527 310 Antisense
GCTCCAGGAGTCAGCGATCTTCATA 68 299 325 Antisense
TAATGCTCGTCACATGCTTGCACTT 145 637 348 Antisense
GGGTGTAATCTCAGCACTTTTCTAC 498 497 390 Antisense
TGAACGCATTTGCAATCTTCTCGGG 149 575 419 Antisense
ATCTTCTCGGGACCCGGAACCATCG 296 29 433 Antisense
GAACCATCGGACTTCCAAATGCTCT 459 343 449 Antisense
TACACCCTTTCTGCAATCTTATTAA 221 643 526 Antisense
GAAGGATACCTTCAGCTTTTGTGCC 202 333 605 Antisense
GTTGGTGACATTCTTGAGTTCTCTC 173 437 657 Antisense
GTTCAATTCCTGATTCTTCTCATTT 687 445 715 Antisense
Sequence Source Affymetrix Proprietary Database