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[177053_at]

Description Y42H9AR.E /REP_DB=WormBase Gene ID /WP=CE25277 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF60563.1
Cluster 6grp_total > 88      4grp_total > 20      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 68
1 2 3 4 range
A 21.7
(-0.2)
A 		8.5
(-2.4)
A 		5
(-3)
A 		41.2
(3)
A 		36
B 8.4
(-2.1)
A 		32.8
(3)
A 		4.2
(-3)
A 		28.6
(2.1)
A 		29
C 40.2
(0.3)
A 		11.1
(-2.2)
A 		2.3
(-3)
A 		70.3
(3)
P 		68
avr 23.4
(-0.3) 		17.5
(-1.1) 		3.8
(-3) 		46.7
(3) 		43

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 118
1 2 3 4 5 6 range
A 2
(-3)
A 		5.9
(-2.8)
A 		36.4
(-1)
A 		24.6
(-1.7)
A 		97.8
(2.6)
P 		103.8
(3)
P 		102
B 23.8
(-2.2)
A 		42.7
(-1.1)
A 		8
(-3)
A 		34.8
(-1.6)
A 		59.6
(-0.2)
A 		120
(3)
P 		112
C 5
(-3)
A 		55.6
(0.2)
A 		7.9
(-2.8)
A 		4.6
(-3)
A 		46.2
(-0.4)
A 		98.9
(3)
P 		94
avr 10.3
(-3) 		34.7
(-1.5) 		17.4
(-2.6) 		21.3
(-2.3) 		67.9
(0.6) 		107.6
(3) 		97
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 13
1 2 3 4 range
A 7.9
(3)
A 		1.8
(-2.5)
A 		1.3
(-3)
A 		6
(1.3)
A 		7
B 2.7
(-1.6)
A 		8.1
(3)
A 		1
(-3)
A 		6.1
(1.3)
A 		7
C 13.3
(3)
A 		3.2
(-1.8)
A 		0.8
(-3)
A 		11.9
(2.3)
P 		13
avr 8
(3) 		4.4
(-0.1) 		1
(-3) 		8
(3) 		7

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 44
1 2 3 4 5 6 range
A 0.4
(-3)
A 		2.1
(-2.6)
A 		7.9
(-1.5)
A 		6.2
(-1.8)
A 		29.5
(3)
P 		25.3
(2.1)
P 		29
B 8.3
(-2.1)
A 		14.2
(-1.3)
A 		2
(-3)
A 		9.2
(-2)
A 		24.2
(0.1)
A 		44.8
(3)
P 		43
C 1.9
(-2.8)
A 		17
(0)
A 		2
(-2.8)
A 		0.9
(-3)
A 		14.9
(-0.4)
A 		33.1
(3)
P 		32
avr 3.5
(-3) 		11.1
(-1.5) 		4
(-2.9) 		5.4
(-2.6) 		22.9
(0.8) 		34.4
(3) 		31
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177053_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19094
Sequence Type Exemplar sequence
Representative Public ID Y42H9AR.E NCBI
Target Description Y42H9AR.E /REP_DB=WormBase Gene ID /WP=CE25277 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF60563.1
Cluster Evidence This cluster is supported by a 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_068949(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_068949 NCBI Caenorhabditis elegans Y42H9AR.2 (Y42H9AR.2) mRNA, complete cds. 11/11 None
SNAP00000030214 ENSEMBL cdna:SNAP chromosome:CEL140:IV:8100509:8101405:1 11/11 None
GENEFINDER00000030220 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:8100527:8104192:1 11/11 None
Y42H9AR.2 ENSEMBL cdna:known chromosome:CEL140:IV:8100527:8101405:1 gene:Y42H9AR.2 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:8100532-8101411(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y42H9AR.2
Entrez Gene 189842 Entrez gene
WormBase CE39049 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF60563 Hypothetical protein Y42H9AR.2 [Caenorhabditis elegans] ref|NP_501350.1| Y42H9AR.2 [Caenorhabditis elegans] 8.0E-70
blast AAF60563 Hypothetical protein Y42H9AR.2 [Caenorhabditis elegans] ref|NP_501350.1| Y42H9AR.2 [Caenorhabditis elegans] 3.0E-67
blast CAE69438 Hypothetical protein CBG15624 [Caenorhabditis briggsae] 7.0E-60
blast CAE69438 Hypothetical protein CBG15624 [Caenorhabditis briggsae] 3.0E-57
blast CAE69438 Hypothetical protein CBG15624 [Caenorhabditis briggsae] 7.0E-56
blast AAL00867 Hypothetical protein Y42H9AR.5 [Caenorhabditis elegans] ref|NP_501351.1| Y42H9AR.5 [Caenorhabditis elegans] 4.0E-53
blast CAA94766 Hypothetical protein F40F9.2 [Caenorhabditis elegans] ref|NP_505501.1| Temporarily Assigned Gene name family member (tag-120) [Caenorhabditis elegans] 4.0E-41
Protein Domains
Database ID Description E-Value
Pfam IPR006214 EMBL-EBI Protein of unknown function UPF0005 1.9E-15
Pfam IPR006214 EMBL-EBI Protein of unknown function UPF0005 2.8E-16
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_501350.1 4 13-35,45-67,72-94,109-131
Y42H9AR.2 4 13-35,45-67,72-94,109-131
SNAP00000030214 4 19-41,51-73,78-100,115-137
GENEFINDER00000030220 4 13-35,45-67,72-94,109-131
Sequence
Target Sequence 
>C. ELEGANS:177053_AT
gcagacgcagtcttgatttcacttctgataaccaccggatgcagtgcttcaatcattttg
ttcgcagctacaacgaaaaaagacttgacttcatgtctcggtgttgctttcattctcgga
atatgcctcatgctttttggattaatggcttgtatcttctgcatcttcctcaattggcaa
ttcctgtacattgtatatgcagtattaggtgcacttctttgcatgttttatttggctatc
gacattcagcttatcatgggtggtcgtcgtgtcgaaatttctccagaagagtacattttc
gcagcaactcatgtctttgtcga

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCAGACGCAGTCTTGATTTCACTTC 305 313 43 Antisense
TTCACTTCTGATAACCACCGGATGC 179 687 60 Antisense
GCAGTGCTTCAATCATTTTGTTCGC 401 311 83 Antisense
GACTTGACTTCATGTCTCGGTGTTG 522 371 124 Antisense
CATTCTCGGAATATGCCTCATGCTT 246 217 153 Antisense
TAATGGCTTGTATCTTCTGCATCTT 406 637 185 Antisense
CTTCTGCATCTTCCTCAATTGGCAA 248 221 198 Antisense
GCACTTCTTTGCATGTTTTATTTGG 330 317 253 Antisense
CAGCTTATCATGGGTGGTCGTCGTG 162 195 289 Antisense
GGTCGTCGTGTCGAAATTTCTCCAG 242 503 304 Antisense
TCGCAGCAACTCATGTCTTTGTCGA 26 601 341 Antisense
Sequence Source Affymetrix Proprietary Database