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[188075_at]

Description Y48A6C.5 /REP_DB=WormBase Gene ID /WP=CE22115 /GEN=pha-1 /TR=Q27242 /GB=CAA21655.1 /SUBMIT=HINXTON /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 17      4grp_total > 05      6grp_cgc > 06      6grp_cgc_sub > Cu      6grp_total_sub > Decrease      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 141
1 2 3 4 range
A 45.5
(-1.4)
A 		13.7
(-2.8)
A 		9.1
(-3)
A 		147.5
(3)
P 		138
B 39.7
(3)
A 		15.9
(-1.6)
A 		8.6
(-3)
A 		11.2
(-2.5)
A 		31
C 36.4
(-1.2)
A 		8.1
(-2.9)
A 		6.3
(-3)
A 		109
(3)
A 		103
avr 40.5
(-0.6) 		12.6
(-2.7) 		8
(-3) 		89.2
(3) 		81

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 40
1 2 3 4 5 6 range
A 42.5
(3)
A 		5.4
(-2.9)
A 		19.6
(-0.6)
A 		4.5
(-3)
A 		4.7
(-3)
A 		5.4
(-2.9)
A 		38
B 23.5
(3)
A 		9.5
(-1.4)
A 		4.2
(-3)
A 		4.5
(-2.9)
A 		7.3
(-2)
A 		6.2
(-2.4)
A 		19
C 4.1
(-2.6)
A 		18.1
(1.9)
A 		3.9
(-2.6)
A 		4.6
(-2.4)
A 		2.7
(-3)
A 		21.7
(3)
A 		19
avr 23.4
(3) 		11
(-0.9) 		9.2
(-1.5) 		4.5
(-3) 		4.9
(-2.9) 		11.1
(-0.9) 		19
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 20
1 2 3 4 range
A 16.6
(1.4)
A 		3
(-2.8)
A 		2.4
(-3)
A 		21.6
(3)
P 		19
B 12.6
(3)
A 		3.9
(-1.9)
A 		2
(-3)
A 		2.4
(-2.8)
A 		11
C 12
(0.6)
A 		2.3
(-3)
A 		2.2
(-3)
A 		18.4
(3)
A 		16
avr 13.7
(2.8) 		3.1
(-2.5) 		2.2
(-3) 		14.1
(3) 		12

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7
1 2 3 4 5 6 range
A 7.8
(3)
A 		1.9
(-2.3)
A 		4.3
(-0.1)
A 		1.1
(-3)
A 		1.4
(-2.7)
A 		1.3
(-2.8)
A 		7
B 8.2
(3)
A 		3.1
(-1.3)
A 		1
(-3)
A 		1.2
(-2.8)
A 		2.9
(-1.4)
A 		2.3
(-1.9)
A 		7
C 1.5
(-2.4)
A 		5.5
(1.3)
A 		1
(-2.9)
A 		0.9
(-3)
A 		0.9
(-3)
A 		7.3
(3)
A 		6
avr 5.8
(3) 		3.5
(0.1) 		2.1
(-1.7) 		1.1
(-3) 		1.7
(-2.2) 		3.6
(0.2) 		5
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 188075_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7455
Sequence Type Exemplar sequence
Representative Public ID Y48A6C.5 NCBI
Target Description Y48A6C.5 /REP_DB=WormBase Gene ID /WP=CE22115 /GEN=pha-1 /TR=Q27242 /GB=CAA21655.1 /SUBMIT=HINXTON /CHR=3 /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_001027719(11), NM_001027720(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001027719 NCBI Caenorhabditis elegans defective PHArynx development family member (pha-1) (pha-1) mRNA, complete cds. 11/11 None
NM_001027720 NCBI Caenorhabditis elegans defective PHArynx development family member (pha-1) (pha-1) mRNA, complete cds. 11/11 None
GENEFINDER00000028341 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:11131676:11135830:1 11/11 None
SNAP00000028338 ENSEMBL cdna:SNAP chromosome:CEL140:III:11132495:11135830:1 11/11 None
Y48A6C.5a ENSEMBL cdna:known chromosome:CEL140:III:11131652:11136564:1 gene:Y48A6C.5 11/11 None
Y48A6C.5b ENSEMBL cdna:known chromosome:CEL140:III:11131676:11135859:1 gene:Y48A6C.5 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
chrIII:11131671-11135855(+) 100.0 100.0
Public Domain and Genome References
Ensembl Y48A6C.5
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAA21655 Hypothetical protein Y48A6C.5a [Caenorhabditis elegans] ref|NP_001022890.1| defective PHArynx development family member (pha-1) [Caenorhabditis elegans] emb|CAA52066.1| pha1 [Caenorhabditis elegans] emb|CAA52299.1| pha-1 [Caenorhabditis elegans] 0.0
blast CAD91711 Hypothetical protein Y48A6C.5b [Caenorhabditis elegans] ref|NP_001022891.1| defective PHArynx development family member (pha-1) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR009497 EMBL-EBI Protein of unknown function DUF1114 1.0E-126
Pfam IPR009497 EMBL-EBI Protein of unknown function DUF1114 1.0E-126
Pfam IPR009497 EMBL-EBI Protein of unknown function DUF1114 1.0E-126
Sequence
Target Sequence 
>C. ELEGANS:188075_AT
ggaggcatttggatactctctaccaagggagtttctggatttattgattaagaaatggaa
tgtgaaaactgtggagattgttccaagacaagaccaaccaataccttactatttccattg
taacactgattttattgtgccaaaagccaagttttatgtggattactggactcaaccaag
gtcaaaatacacattggatggcgttgaaattgatctacaactcacaaaagtagtcgaaca
acaaataaagaatcggaaatcactattcgataattttattgccaacgctcgcagaatctt
tcccagcaataagatcactgtaagattctcgaaggaagtttgccaagagatgatgagtca
aggaaatgttgaagattttatatcgggaataatattgatgactcaaaaggatgctcaacc
taactcgcatatatctctcaaattatatcctgaagaagtagatgcccctttaattgattc
gtttctacgtgaaaatttcgagaagaaatttgattcttggaacctcgaaaccgtttcaga
cagttctgcaaatctcccagcagaaaaatgttatcagtttttcaaccagtcaac

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGGCATTTGGATACTCTCTACCA 37 515 861 Antisense
CTCTCTACCAAGGGAGTTTCTGGAT 370 227 876 Antisense
CCAACCAATACCTTACTATTTCCAT 128 275 954 Antisense
ATTTTATTGCCAACGCTCGCAGAAT 288 15 1133 Antisense
TCGCAGAATCTTTCCCAGCAATAAG 52 601 1149 Antisense
AAAAGGATGCTCAACCTAACTCGCA 237 133 1265 Antisense
ACCTAACTCGCATATATCTCTCAAA 610 87 1278 Antisense
GTAGATGCCCCTTTAATTGATTCGT 604 455 1318 Antisense
TCTTGGAACCTCGAAACCGTTTCAG 201 595 1375 Antisense
CAGACAGTTCTGCAAATCTCCCAGC 264 205 1397 Antisense
GTTATCAGTTTTTCAACCAGTCAAC 461 447 1430 Antisense
Sequence Source Affymetrix Proprietary Database