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[177160_at]

Description Y38C1AA.D /REP_DB=WormBase Gene ID /WP=CE25245 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59465.1
Cluster 6grp_total > 88      4grp_total > 33      6grp_total_sub > Increase      6grp_rule_based > S6      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 66
1 2 3 4 range
A 7.1
(-3)
A 		24.4
(-1.4)
A 		38.7
(-0.1)
A 		73.2
(3)
A 		66
B 21.3
(2.6)
A 		21.5
(3)
A 		18.1
(-3)
A 		20.5
(1.2)
A 		3
C 20.2
(-3)
A 		68.9
(3)
A 		36.4
(-1)
A 		33.1
(-1.4)
A 		49
avr 16.2
(-3) 		38.3
(2.1) 		31.1
(0.4) 		42.3
(3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1314
1 2 3 4 5 6 range
A 27.5
(-3)
A 		40.4
(-2.9)
A 		43
(-2.9)
A 		98.9
(-2.7)
M 		726.9
(0.4)
P 		1276
(3)
P 		1249
B 8.6
(-3)
A 		18.2
(-3)
A 		34.4
(-2.9)
A 		129.2
(-2.4)
P 		937.9
(1.5)
P 		1251.2
(3)
P 		1243
C 6.3
(-3)
A 		22.5
(-2.9)
A 		7.9
(-3)
A 		99.8
(-2.6)
A 		722.5
(0.3)
P 		1320.5
(3)
P 		1314
avr 14.1
(-3) 		27
(-2.9) 		28.4
(-2.9) 		109.3
(-2.5) 		795.8
(0.7) 		1282.6
(3) 		1269
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 17
1 2 3 4 range
A 2.6
(-3)
A 		5.3
(-1)
A 		10.1
(2.6)
A 		10.7
(3)
A 		8
B 6.8
(3)
A 		5.3
(-0.5)
A 		4.2
(-3)
A 		4.4
(-2.5)
A 		3
C 6.7
(-2.5)
A 		19.8
(3)
A 		12.7
(0)
A 		5.6
(-3)
A 		14
avr 5.4
(-3) 		10.1
(3) 		9
(1.6) 		6.9
(-1.1) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 465
1 2 3 4 5 6 range
A 5.1
(-3)
A 		14.4
(-2.8)
A 		9.4
(-2.9)
A 		25.1
(-2.6)
M 		219.3
(1.2)
P 		310.7
(3)
P 		306
B 3
(-3)
A 		6
(-3)
A 		8.3
(-2.9)
A 		34.2
(-2.6)
P 		381.1
(1.9)
P 		466.6
(3)
P 		464
C 2.3
(-3)
A 		6.9
(-2.9)
A 		2
(-3)
A 		20.1
(-2.8)
A 		233.8
(0.2)
P 		442.1
(3)
P 		440
avr 3.5
(-3) 		9.1
(-2.9) 		6.6
(-3) 		26.5
(-2.7) 		278.1
(1.1) 		406.5
(3) 		403
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 177160_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.19137
Sequence Type Exemplar sequence
Representative Public ID Y38C1AA.D NCBI
Target Description Y38C1AA.D /REP_DB=WormBase Gene ID /WP=CE25245 /CHR=4 /FEA=Sanger Annotation /DEF=(ST.LOUIS) protein_id:AAF59465.1
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_067471(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_067471 NCBI Caenorhabditis elegans Y38C1AA.7 (Y38C1AA.7) mRNA, complete cds. 11/11 None
SNAP00000038640 ENSEMBL cdna:SNAP chromosome:CEL140:IV:155876:159782:1 11/11 None
GENEFINDER00000038656 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:159028:159782:1 11/11 None
Y38C1AA.7 ENSEMBL cdna:known chromosome:CEL140:IV:159028:159782:1 gene:Y38C1AA.7 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:159027-159782(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y38C1AA.7
Entrez Gene 176830 Entrez gene
SwissProt Q9N431 EMBL-EBI
WormBase CE25245 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF59465 Hypothetical protein Y38C1AA.7 [Caenorhabditis elegans] ref|NP_499872.1| Y38C1AA.7 [Caenorhabditis elegans] 8.0E-70
blast AAF59465 Hypothetical protein Y38C1AA.7 [Caenorhabditis elegans] ref|NP_499872.1| Y38C1AA.7 [Caenorhabditis elegans] 2.0E-69
blast AAC05107 Hypothetical protein F17E9.5 [Caenorhabditis elegans] ref|NP_501412.1| F17E9.5 [Caenorhabditis elegans] 4.0E-64
blast AAC05107 Hypothetical protein F17E9.5 [Caenorhabditis elegans] ref|NP_501412.1| F17E9.5 [Caenorhabditis elegans] 7.0E-64
blast CAE58507 Hypothetical protein CBG01657 [Caenorhabditis briggsae] 2.0E-59
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_499872.1 3 13-35,45-64,89-111
Y38C1AA.7 3 13-35,45-64,89-111
SNAP00000038640 3 82-104,114-133,158-180
GENEFINDER00000038656 3 13-35,45-64,89-111
Sequence
Target Sequence 
>C. ELEGANS:177160_AT
caaatcccaccatacgagttcaacaagtacgtgctctacgtccgtggtgccgtcatcgtc
tgtgcttcatttgagctcctgttggtcctattcggttccctcgaagattgcaacttcctt
gctaagctcttctacttcatcttccttggcggagcagttgccatctcagctcacaacatt
ggtctcaacgtggatggtcgcgaggagctcaacaaggttctttcatcgtcagagaatgaa
gttcgtggaaagtctgctgccttgattctggtgccagcgctctccggtgtcctcgtcttc
ttatgtgtctctggacatgcattcttctcgcttttcgtgctcatccatgtgctcgccgcc
gttggacaactcggaattgaggtttatgagttgaagaagggacaatctggaggttctgca
cgaggtgctgcaccgtcagca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAAATCCCACCATACGAGTTCAACA 602 191 19 Antisense
TCATTTGAGCTCCTGTTGGTCCTAT 94 621 85 Antisense
GGTTCCCTCGAAGATTGCAACTTCC 463 505 112 Antisense
TGCAACTTCCTTGCTAAGCTCTTCT 70 577 127 Antisense
TCATCTTCCTTGGCGGAGCAGTTGC 382 621 155 Antisense
GCCATCTCAGCTCACAACATTGGTC 489 281 178 Antisense
TTGGTCTCAACGTGGATGGTCGCGA 251 703 197 Antisense
AGCTCAACAAGGTTCTTTCATCGTC 209 79 224 Antisense
CTGCTGCCTTGATTCTGGTGCCAGC 182 237 272 Antisense
CTCGTCTTCTTATGTGTCTCTGGAC 130 233 310 Antisense
TGCACGAGGTGCTGCACCGTCAGCA 387 575 435 Antisense
Sequence Source Affymetrix Proprietary Database