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[173272_s_at]

Description CEC1113_rc /REP_DB=TREMBL Accession /GB=C11111 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk164b5 : 3prime end, single read.
Cluster 6grp_high1_10_10 > 46      4grp_highest_8_8 > 43      4grp_high_8_8 > 32      6grp_total > 37      4grp_total > 47      6grp_high1_sub > Cu      6grp_total_sub > Cup      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 172
1 2 3 4 range
A 298.9
(3)
P 		216.9
(-1)
P 		175.9
(-3)
P 		200
(-1.8)
P 		123
B 236.1
(3)
P 		127.1
(-3)
P 		206
(1.3)
P 		144.5
(-2)
P 		109
C 248.1
(3)
P 		171.6
(-2.9)
P 		169.8
(-3)
P 		189.4
(-1.5)
P 		78
avr 261
(3) 		171.9
(-3) 		183.9
(-2.2) 		178
(-2.6) 		89

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 314
1 2 3 4 5 6 range
A 413.6
(3)
P 		206
(-1.3)
P 		125.1
(-3)
P 		129.1
(-2.9)
M 		145.6
(-2.6)
P 		283.4
(0.3)
P 		289
B 307.5
(1.6)
P 		362.9
(3)
P 		182.2
(-1.6)
P 		153.7
(-2.4)
P 		129.1
(-3)
P 		359.1
(2.9)
P 		234
C 181.1
(-0.6)
P 		305.4
(3)
P 		125
(-2.2)
P 		154.3
(-1.4)
P 		99.2
(-3)
P 		235.4
(1)
P 		206
avr 300.7
(3) 		291.4
(2.7) 		144.1
(-2.3) 		145.7
(-2.3) 		124.6
(-3) 		292.6
(2.7) 		176
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 80
1 2 3 4 range
A 108.8
(3)
P 		47.1
(-1.7)
P 		46
(-1.7)
P 		29.3
(-3)
P 		80
B 75.3
(3)
P 		31.4
(-2.9)
P 		47.7
(-0.7)
P 		30.8
(-3)
P 		45
C 82.1
(3)
P 		49.3
(-0.9)
P 		59.2
(0.3)
P 		31.9
(-3)
P 		50
avr 88.7
(3) 		42.6
(-1.8) 		51
(-0.9) 		30.7
(-3) 		58

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 107
1 2 3 4 5 6 range
A 76.2
(3)
P 		73.3
(2.6)
P 		27.2
(-3)
P 		32.7
(-2.3)
M 		43.9
(-1)
P 		69
(2.1)
P 		49
B 107
(1.3)
P 		120.8
(2.2)
P 		44.2
(-2.8)
P 		40.7
(-3)
P 		52.5
(-2.2)
P 		133.9
(3)
P 		93
C 67.1
(0.5)
P 		93.2
(3)
P 		31.8
(-2.9)
P 		31
(-3)
P 		32.1
(-2.9)
P 		78.8
(1.6)
P 		62
avr 83.4
(1.8) 		95.8
(3) 		34.4
(-3) 		34.8
(-3) 		42.8
(-2.2) 		93.9
(2.8) 		61
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 173272_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.27987
Sequence Type Exemplar sequence
Representative Public ID CEC1113 NCBI
Target Description CEC1113_rc /REP_DB=TREMBL Accession /GB=C11111 /FEA=Transcript Cluster /DEF=C.elegans cDNA clone yk164b5 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Transcript Cluster.
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_070735(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070735 NCBI Caenorhabditis elegans Y38C9A.1 (Y38C9A.1) mRNA, complete cds. 11/11 A 
SNAP00000037389 ENSEMBL cdna:SNAP chromosome:CEL140:V:106827:120717:1 11/11 None
GENEFINDER00000037392 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:113762:117494:1 11/11 None
Y38C9A.1 ENSEMBL cdna:known chromosome:CEL140:V:107230:117990:1 gene:Y38C9A.1 11/11 A 
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
chrV:117217-117955(+) 98.1 98.1
Public Domain and Genome References
Gene Title
Ensembl Y38C9A.1
Entrez Gene 178539 Entrez gene
SwissProt Q9UAZ3 EMBL-EBI
WormBase CE31104 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAD14762 Hypothetical protein Y38C9A.1 [Caenorhabditis elegans] ref|NP_503136.2| Y38C9A.1 [Caenorhabditis elegans] 0.0
blast CAE62363 Hypothetical protein CBG06447 [Caenorhabditis briggsae] 0.0
blast AAD14762 Hypothetical protein Y38C9A.1 [Caenorhabditis elegans] ref|NP_503136.2| Y38C9A.1 [Caenorhabditis elegans] 1.0E-126
blast CAE62363 Hypothetical protein CBG06447 [Caenorhabditis briggsae] 1.0E-29
Protein Domains
Database ID Description E-Value
scop a.1.1.Globins All alpha proteins; Globin-like; Globin-like; Globins 3.0
Sequence
Target Sequence 
>C. ELEGANS:173272_S_AT
ccacagcaacaagcccatctggttcagcgaccacaagctcatcgtntatcggctccggng
annnnnnnnnnnnnnnnnnnnnnagcagctcggcagccggaaactccgcagccatcagct
gttcaggcgactttgatgcacnnnnngaactcgatcaatgatcctgtgcagcgagaggct
ctttcgaaacaac

BLASTn GenBank NR
Note: "n"'s represent regions that are not probed by the probe sequences.
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCACAGCAACAAGCCCATCTGGTTC 362 275 84 Antisense
CAGCAACAAGCCCATCTGGTTCAGC 533 203 87 Antisense
TCTGGTTCAGCGACCACAAGCTCAT 48 609 101 Antisense
CGCAGCCATCAGCTGTTCAGGCGAC 45 255 190 Antisense
GCCATCAGCTGTTCAGGCGACTTTG 193 277 194 Antisense
AGCTGTTCAGGCGACTTTGATGCAC 291 81 200 Antisense
GAACTCGATCAATGATCCTGTGCAG 461 349 230 Antisense
TCGATCAATGATCCTGTGCAGCGAG 349 579 234 Antisense
GATCCTGTGCAGCGAGAGGCTCTTT 509 415 243 Antisense
GTGCAGCGAGAGGCTCTTTCGAAAC 688 479 249 Antisense
CAGCGAGAGGCTCTTTCGAAACAAC 514 201 252 Antisense
Sequence Source Affymetrix Proprietary Database