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[187626_s_at]

Description C38D4.2 /REP_DB=WormBase Gene ID /WP=CE00915 /CHR=3 /FEA=Sanger Annotation /DEF=(HINXTON) TR:Q18506 protein_id:CAA86315.1
Cluster 6grp_total > 76      4grp_total > 02      6grp_total_sub > Increase      4grp_rule_based > L4      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 375
1 2 3 4 range
A 68.4
(-1.4)
A 		110
(-0.3)
A 		12.7
(-3)
A 		227.7
(3)
P 		215
B 80.6
(-2.1)
A 		52.6
(-3)
A 		129.3
(-0.5)
A 		236.7
(3)
A 		184
C 59.8
(-3)
A 		62.4
(-3)
A 		78.5
(-2.7)
A 		387.7
(3)
A 		328
avr 69.6
(-3) 		75
(-2.8) 		73.5
(-2.9) 		284
(3) 		214

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 420
1 2 3 4 5 6 range
A 177.6
(-1.1)
A 		44.9
(-3)
A 		123.3
(-1.9)
A 		261.5
(0.1)
P 		120.9
(-1.9)
P 		465.1
(3)
P 		420
B 98.6
(-3)
A 		122.5
(-2.5)
A 		140.9
(-2.1)
A 		216.1
(-0.6)
P 		169.5
(-1.6)
P 		394.2
(3)
P 		296
C 102.7
(-3)
P 		260.7
(0.8)
P 		148.1
(-1.9)
A 		301.7
(1.8)
P 		235.2
(0.2)
P 		350.1
(3)
P 		247
avr 126.3
(-3) 		142.7
(-2.6) 		137.4
(-2.8) 		259.8
(-0.1) 		175.2
(-1.9) 		403.1
(3) 		277
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 62
1 2 3 4 range
A 24.9
(1.3)
A 		23.9
(1.1)
A 		3.3
(-3)
A 		33.3
(3)
P 		30
B 25.7
(-1)
A 		13
(-3)
A 		30
(-0.3)
A 		50.4
(3)
A 		37
C 19.8
(-2.8)
A 		17.9
(-3)
A 		27.3
(-1.8)
A 		65.4
(3)
A 		48
avr 23.5
(-2) 		18.3
(-3) 		20.2
(-2.6) 		49.7
(3) 		31

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 131
1 2 3 4 5 6 range
A 32.7
(-2)
A 		16
(-3)
A 		26.9
(-2.3)
A 		66.3
(0.1)
P 		36.5
(-1.7)
P 		113.2
(3)
P 		97
B 34.3
(-3)
A 		40.8
(-2.6)
A 		34.2
(-3)
A 		57.2
(-1.8)
P 		68.9
(-1.2)
P 		147
(3)
P 		113
C 38.1
(-3)
P 		79.5
(0.2)
P 		37.7
(-3)
A 		60.7
(-1.3)
P 		76.1
(-0.1)
P 		117.2
(3)
P 		80
avr 35
(-2.9) 		45.4
(-2.2) 		32.9
(-3) 		61.4
(-1.2) 		60.5
(-1.2) 		125.8
(3) 		93
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 187626_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6126
Sequence Type Exemplar sequence
Representative Public ID C38D4.2 NCBI
Target Description C38D4.2 /REP_DB=WormBase Gene ID /WP=CE00915 /CHR=3 /FEA=Sanger Annotation /DEF=(HINXTON) TR:Q18506 protein_id:CAA86315.1
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_058747(11), NM_059086(11), NM_065584(11), NM_065585(11), NM_066901(11), NM_067277(11), NM_067278(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_058747 NCBI Caenorhabditis elegans W05F2.2a (W05F2.2) mRNA, complete cds. 11/11 A 
NM_059086 NCBI Caenorhabditis elegans W03G9.3 (W03G9.3) mRNA, complete cds. 11/11 A 
NM_065584 NCBI Caenorhabditis elegans C38D4.1a (C38D4.1) mRNA, complete cds. 11/11 A 
NM_065585 NCBI Caenorhabditis elegans C38D4.1b (C38D4.1) mRNA, complete cds. 11/11 None
NM_066901 NCBI Caenorhabditis elegans H04D03.1 (H04D03.1) mRNA, complete cds. 11/11 A 
NM_067277 NCBI Caenorhabditis elegans Y37D8A.12a (Y37D8A.12) mRNA, complete cds. 11/11 A 
NM_067278 NCBI Caenorhabditis elegans Y37D8A.12b (Y37D8A.12) mRNA, complete cds. 11/11 None
SNAP00000029373 ENSEMBL cdna:SNAP chromosome:CEL140:I:3364028:3365858:-1 11/11 None
GENEFINDER00000029381 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:3364028:3365858:-1 11/11 None
SNAP00000033390 ENSEMBL cdna:SNAP chromosome:CEL140:I:4959493:4961310:1 11/11 None
GENEFINDER00000033405 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:4959493:4961310:1 11/11 None
SNAP00000028780 ENSEMBL cdna:SNAP chromosome:CEL140:III:12878531:12880334:1 11/11 None
GENEFINDER00000028814 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:12878531:12880334:1 11/11 None
GENEFINDER00000026569 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:10436654:10437440:1 11/11 None
SNAP00000026562 ENSEMBL cdna:SNAP chromosome:CEL140:III:10436772:10437440:1 9/11 None
SNAP00000018662 ENSEMBL cdna:SNAP chromosome:CEL140:III:4783324:4785141:-1 11/11 None
GENEFINDER00000018676 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:4783324:4785141:-1 11/11 None
W05F2.2a ENSEMBL cdna:known chromosome:CEL140:I:3363821:3365858:-1 gene:W05F2.2 11/11 A 
W03G9.3 ENSEMBL cdna:known chromosome:CEL140:I:4959476:4961455:1 gene:W03G9.3 11/11 A 
C38D4.1a ENSEMBL cdna:known chromosome:CEL140:III:4783223:4785141:-1 gene:C38D4.1 11/11 A 
C38D4.1b ENSEMBL cdna:known chromosome:CEL140:III:4784649:4785197:-1 gene:C38D4.1 11/11 None
H04D03.1 ENSEMBL cdna:known chromosome:CEL140:III:10436491:10437602:1 gene:H04D03.1 11/11 A 
Y37D8A.12a.1 ENSEMBL cdna:known chromosome:CEL140:III:12878264:12880557:1 gene:Y37D8A.12 11/11 A 
Y37D8A.12a.2 ENSEMBL cdna:known chromosome:CEL140:III:12878264:12880334:1 gene:Y37D8A.12 11/11 A 
Y37D8A.12b ENSEMBL cdna:known chromosome:CEL140:III:12878531:12879011:1 gene:Y37D8A.12 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Splice Variants
Entrez Total Refseq Isoforms Total Detected By This Probeset Refseq Probesets
189215 2 1 NM_058747 187626_s_at (11)
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:4959492-4959985(+) 99.54 99.54
chrIII:12878526-12879007(+) 96.32 96.32
chrIII:10436649-10437136(+) 96.32 96.32
chrI:3365365-3365858(-) 99.31 99.31
chrIII:4784648-4785141(-) 100.0 100.0
Public Domain and Genome References
Gene Title


Ensembl W05F2.2
W03G9.3
C38D4.1
H04D03.1
Y37D8A.12
Entrez Gene 172117 Entrez gene
176463 Entrez gene
189215 Entrez gene
SwissProt O45607 EMBL-EBI
O44748 EMBL-EBI
Q9TYT9 EMBL-EBI
WormBase CE16165 Wormbase
CE14558 Wormbase
CE14614 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_491148 W05F2.2a [Caenorhabditis elegans] gb|AAC78213.1| Hypothetical protein W05F2.2 [Caenorhabditis elegans] 0.0
blast NP_491487 W03G9.3 [Caenorhabditis elegans] gb|AAB96737.1| Hypothetical protein W03G9.3 [Caenorhabditis elegans] 0.0
blast CAA86323 Hypothetical protein C38D4.1a [Caenorhabditis elegans] ref|NP_497985.1| C38D4.1a [Caenorhabditis elegans] 0.0
blast CAA21531 Hypothetical protein Y37D8A.12a [Caenorhabditis elegans] ref|NP_499678.1| Y37D8A.12a [Caenorhabditis elegans] 0.0
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_491148.1 2 7-29,111-130
NP_491487.1 2 7-29,111-130
NP_497985.1 2 7-29,111-130
NP_497986.1 2 7-29,111-130
NP_499302.1 2 7-29,109-128
NP_499678.1 2 3-25,106-126
NP_499679.1 2 3-25,106-125
W05F2.2a 2 7-29,111-130
W03G9.3 2 7-29,111-130
C38D4.1a 2 7-29,111-130
C38D4.1b 2 7-29,111-130
H04D03.1 2 7-29,109-128
Y37D8A.12a.1 2 3-25,106-126
Y37D8A.12a.2 2 3-25,106-126
Y37D8A.12b 2 3-25,106-125
SNAP00000029373 2 7-29,111-130
GENEFINDER00000029381 2 7-29,111-130
SNAP00000033390 2 7-29,111-130
GENEFINDER00000033405 2 7-29,111-130
SNAP00000028780 2 3-25,106-126
GENEFINDER00000028814 2 3-25,106-126
GENEFINDER00000026569 2 7-29,109-128
SNAP00000026562 1 89-108
SNAP00000018662 2 7-29,111-130
GENEFINDER00000018676 2 7-29,111-130
Sequence
Target Sequence 
>C. ELEGANS:187626_S_AT
tttgttttcattggtaatcttcggattaatagttcatgtattgccaacaaccaccacacc
aaatgtgcctgtttccgccgctacgaacacttcaaacgtgaccgctcctgccggcaattc
ggcaaaaagtcctaatgcgaccgctcctgccggcaatccgacgaaaaatgtaaacgtgac
cgctcctgccgccaatacgacgcagcttgctcttgtgagctcggcgagccctcaaacctg
caaaaatggaaacggcacacactgcccgtcatgtgcatacacgatcaatgttcacaagga
cacgccgaagtacatcggatatggcatcctgatcgccttcgtcattttccacattttttt
gtatttctacctcgaggatcagaaggc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTGTTTTCATTGGTAATCTTCGGA 76 667 30 Antisense
AATCTTCGGATTAATAGTTCATGTA 568 167 45 Antisense
AACAACCACCACACCAAATGTGCCT 456 135 75 Antisense
CCACACCAAATGTGCCTGTTTCCGC 84 273 83 Antisense
CGCCGCTACGAACACTTCAAACGTG 688 255 105 Antisense
CGAACACTTCAAACGTGACCGCTCC 357 253 113 Antisense
CAAAAAGTCCTAATGCGACCGCTCC 318 191 152 Antisense
AAATGGAAACGGCACACACTGCCCG 57 121 273 Antisense
CACAAGGACACGCCGAAGTACATCG 605 191 322 Antisense
CACATTTTTTTGTATTTCTACCTCG 437 195 379 Antisense
ATTTCTACCTCGAGGATCAGAAGGC 236 13 392 Antisense
Sequence Source Affymetrix Proprietary Database