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[188329_at]

Description ZC434.6 /REP_DB=WormBase Gene ID /WP=CE15229 /GEN=aph-2 /TR=SW:Q23316 /GB=CAB00063.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation
Cluster 6grp_highest_10_10 > 37      6grp_high1_10_10 > 73      4grp_highest_8_8 > 50      4grp_high_8_8 > 40      6grp_highest_nonorm > 73      6grp_total > 61      4grp_total > 46      6grp_highest_sub > 03_04      6grp_cgc > 75      6grp_high1_sub > 03_04      6grp_cgc_sub > 03_04      6grp_total_sub > Hat      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 488
1 2 3 4 range
A 773.6
(3)
P 		406.8
(-2.4)
P 		371.8
(-2.9)
P 		363
(-3)
P 		411
B 850.5
(3)
P 		580.1
(-0.4)
P 		373.6
(-3)
P 		371.9
(-3)
P 		479
C 806.1
(3)
P 		452.2
(-2.4)
P 		553.2
(-0.9)
P 		414.7
(-3)
P 		391
avr 810.1
(3) 		479.7
(-1.6) 		432.9
(-2.3) 		383.2
(-3) 		427

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 343
1 2 3 4 5 6 range
A 375.8
(-3)
P 		609.8
(1.1)
P 		484.7
(-1.1)
P 		718.8
(3)
P 		445.5
(-1.8)
P 		561.8
(0.3)
P 		343
B 427
(-3)
P 		502.3
(0)
P 		576.1
(3)
P 		499
(-0.1)
P 		492.9
(-0.3)
P 		452.3
(-2)
P 		149
C 519.5
(-1)
P 		446.9
(-3)
P 		668.1
(3)
P 		596.4
(1.1)
P 		517
(-1.1)
P 		506.7
(-1.4)
P 		221
avr 440.8
(-3) 		519.7
(-0.1) 		576.3
(2) 		604.7
(3) 		485.1
(-1.4) 		506.9
(-0.6) 		164
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 229
1 2 3 4 range
A 281.7
(3)
P 		88.3
(-2.1)
P 		97.2
(-1.8)
P 		53.1
(-3)
P 		229
B 271.2
(3)
P 		143.3
(-1)
P 		86.6
(-2.8)
P 		79.2
(-3)
P 		192
C 266.8
(3)
P 		130
(-1.2)
P 		192.8
(0.7)
P 		69.9
(-3)
P 		197
avr 273.2
(3) 		120.5
(-1.5) 		125.5
(-1.3) 		67.4
(-3) 		206

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 148
1 2 3 4 5 6 range
A 69.3
(-3)
P 		216.9
(3)
P 		105.5
(-1.5)
P 		182.3
(1.6)
P 		134.4
(-0.4)
P 		136.8
(-0.3)
P 		148
B 148.6
(-1.6)
P 		167.2
(0.1)
P 		139.9
(-2.3)
P 		132.2
(-3)
P 		200.3
(3)
P 		168.7
(0.2)
P 		68
C 192.5
(3)
P 		136.4
(-1.6)
P 		170
(1.1)
P 		119.9
(-3)
P 		167.3
(0.9)
P 		169.6
(1.1)
P 		73
avr 136.8
(-3) 		173.5
(3) 		138.5
(-2.7) 		144.8
(-1.7) 		167.3
(2) 		158.4
(0.5) 		37
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188329_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.438
Sequence Type Exemplar sequence
Representative Public ID ZC434.6 NCBI
Target Description ZC434.6 /REP_DB=WormBase Gene ID /WP=CE15229 /GEN=aph-2 /TR=SW:Q23316 /GB=CAB00063.1 /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_060311(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060311 NCBI Caenorhabditis elegans Anterior PHarynx defective family member (aph-2) (aph-2) mRNA, complete cds. 11/11 None
SNAP00000018738 ENSEMBL cdna:SNAP chromosome:CEL140:I:10349151:10353596:1 11/11 None
GENEFINDER00000018752 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:10349151:10354291:1 10/11 None
ZC434.6 ENSEMBL cdna:known chromosome:CEL140:I:10349137:10353770:1 gene:ZC434.6 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:10349081-10353527(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Gene Symbol aph-2
Ensembl ZC434.6
Entrez Gene 172905 Entrez gene
WormBase CE34446 Wormbase
Functional Annotations
Ortholog
ID Title Organism
ATH1-121501:252028_AT nicastrin-related at
ATH1-121501:252062_AT nicastrin-related at
CANINE:1583994_AT similar to Nicastrin precursor cfa
CANINE_2:CFA.18985.1.S1_S_AT similar to Nicastrin precursor cfa
CANINE_2:CFA.9498.1.A1_AT similar to Nicastrin precursor cfa
CANINE_2:CFA.9498.1.A1_S_AT similar to Nicastrin precursor cfa
CANINE_2:CFAAFFX.19476.1.S1_AT similar to Nicastrin precursor cfa
DROSOPHILA_2:1640412_AT nicastrin dm
DROSGENOME1:154779_AT nicastrin dm
CHICKEN:GGA.9792.2.S1_AT nicastrin gga
CHICKEN:GGAAFFX.12618.1.S1_S_AT nicastrin gga
HG-U133_PLUS_2:208759_AT nicastrin hs
HG-U133A:208759_AT nicastrin hs
HG-U133A_2:208759_AT nicastrin hs
HU35KSUBC:RC_R96527_S_AT nicastrin hs
HU35KSUBD:RC_N72867_S_AT nicastrin hs
HUGENEFL:D87442_AT nicastrin hs
U133_X3P:G9992877_3P_AT nicastrin hs
U133_X3P:HS.195567.0.A1_3P_AT nicastrin hs
HG-U133_PLUS_2:237076_AT nicastrin hs
HG-U133B:237076_AT nicastrin hs
HG-U95AV2:34835_AT nicastrin hs
HG-U95E:86276_AT nicastrin hs
HG-U95D:77620_AT Nicastrin hs
HG-U95D:79019_AT Nicastrin hs
MG-U74BV2:109771_AT nicastrin mm
MOE430A:1418570_AT nicastrin mm
MOUSE430A_2:1418570_AT nicastrin mm
MOUSE430_2:1418570_AT nicastrin mm
MU19KSUBB:TC33803_AT Nicastrin, mRNA (cDNA clone MGC:28725 IMAGE:4458780) mm
RAE230A:1367511_AT nicastrin rn
RAE230B:1367511_AT nicastrin rn
RAT230_2:1367511_AT nicastrin rn
RAE230B:1396543_AT nicastrin rn
RAT230_2:1396543_AT nicastrin rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6118 electron transport inferred from electronic annotation QuickGO AmiGO
16485 protein processing inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB00063 Hypothetical protein ZC434.6 [Caenorhabditis elegans] ref|NP_492712.2| Anterior PHarynx defective family member (aph-2) [Caenorhabditis elegans] sp|Q23316|NICA_CAEEL Nicastrin precursor (Anterior-pharynx-defective protein 2) 0.0
blast CAE73797 Hypothetical protein CBG21347 [Caenorhabditis briggsae] 0.0
blast NP_001004413 nicastrin [Gallus gallus] emb|CAG32174.1| hypothetical protein [Gallus gallus] 3.0E-40
blast NP_001004413 nicastrin [Gallus gallus] emb|CAG32174.1| hypothetical protein [Gallus gallus] 4.0E-40
Protein Domains
Database ID Description E-Value
Pfam IPR008710 EMBL-EBI Nicastrin 1.0E-126
Pfam IPR008710 EMBL-EBI Nicastrin 1.0E-126
Pfam IPR008710 EMBL-EBI Nicastrin 1.0E-126
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492712.2 1 679-701
ZC434.6 1 679-701
SNAP00000018738 1 677-699
GENEFINDER00000018752 2 679-701,749-771
Sequence
Target Sequence 
>C. ELEGANS:188329_AT
tatattcgattgtctcatcacttccaatttctggttcgactgtgattttatgcaaaaact
cgatggcggtcgctaccacaagctgtttaattcctacggttttaatcaaaaatcaacata
tatttcaatggaatcccatactgcattccctaccgtactccattggttaactattttcgc
tttgggtagtgacaaagaaacattgaatgtgaaaagtgaaaagagctgctcacatcttgg
tcaatttcaagcgatgtatacctacacgtggcaaccgaatccgtacaccggaaatttcag
ttgtctgaaatctgcaattgttaaaaaagtaatggtttcgccggctgtagattctcaaac
acccgaagaagaaatgaacacgagatattcaacatggatggaatcagtttatattattga
atctgtgaatttatatttgatggaagatgcttcatttgaatatacaatgattctgattgc
ggttatttctgctttattatcaatctttgcagttggtcgctgttctg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TATATTCGATTGTCTCATCACTTCC 56 663 1593 Antisense
ATCACTTCCAATTTCTGGTTCGACT 583 27 1609 Antisense
AAAAACTCGATGGCGGTCGCTACCA 156 129 1646 Antisense
ACCACAAGCTGTTTAATTCCTACGG 476 83 1667 Antisense
CATTGGTTAACTATTTTCGCTTTGG 620 211 1753 Antisense
GCTGCTCACATCTTGGTCAATTTCA 250 297 1817 Antisense
ATGTATACCTACACGTGGCAACCGA 161 47 1846 Antisense
TGGCAACCGAATCCGTACACCGGAA 430 545 1861 Antisense
AAGTAATGGTTTCGCCGGCTGTAGA 361 155 1919 Antisense
GCCGGCTGTAGATTCTCAAACACCC 589 283 1932 Antisense
ATCTTTGCAGTTGGTCGCTGTTCTG 74 33 2095 Antisense
Sequence Source Affymetrix Proprietary Database