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[187259_at]

Description C28H8.7 /REP_DB=WormBase Gene ID /WP=CE01829 /TR=SW:Q09245 /GB=AAA62295.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 47      4grp_total > 02      6grp_total_sub > Cup      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 66
1 2 3 4 range
A 17.7
(-1)
A 		22.5
(-0.3)
A 		4.2
(-3)
A 		45.5
(3)
A 		41
B 20.6
(-2.2)
A 		27.5
(-0.5)
A 		42.3
(3)
A 		17.1
(-3)
A 		25
C 19.4
(-1.5)
A 		3.2
(-3)
A 		10.9
(-2.3)
A 		68.8
(3)
M 		66
avr 19.2
(-2.7) 		17.7
(-3) 		19.1
(-2.7) 		43.8
(3) 		26

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 49
1 2 3 4 5 6 range
A 52.5
(3)
A 		27.7
(-0.6)
A 		23.4
(-1.2)
A 		10.7
(-3)
A 		27.1
(-0.6)
A 		41.3
(1.4)
A 		42
B 23.4
(2.7)
A 		19.9
(1.4)
A 		23.1
(2.6)
A 		18
(0.8)
A 		24.3
(3)
A 		7.5
(-3)
A 		17
C 3.7
(-3)
A 		25.1
(-0.3)
A 		25.9
(-0.2)
A 		51.2
(3)
A 		5.1
(-2.8)
A 		32.9
(0.7)
A 		48
avr 26.5
(2.5) 		24.2
(0.9) 		24.1
(0.8) 		26.6
(2.6) 		18.8
(-3) 		27.2
(3) 		8
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 11
1 2 3 4 range
A 6.5
(2.8)
A 		4.9
(1.1)
A 		1.1
(-3)
A 		6.7
(3)
A 		6
B 6.6
(-0.1)
A 		6.8
(0)
A 		9.8
(3)
A 		3.7
(-3)
A 		6
C 6.4
(0.1)
A 		0.9
(-3)
A 		3.8
(-1.4)
A 		11.6
(3)
M 		11
avr 6.5
(1.5) 		4.2
(-3) 		4.9
(-1.6) 		7.3
(3) 		3

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 10
1 2 3 4 5 6 range
A 9.7
(2.7)
A 		9.8
(2.8)
A 		5.1
(-1.1)
A 		2.7
(-3)
A 		8.2
(1.5)
A 		10.1
(3)
A 		7
B 8.1
(1.5)
A 		6.6
(0.2)
A 		5.6
(-0.6)
A 		4.8
(-1.3)
A 		9.9
(3)
A 		2.8
(-3)
A 		7
C 1.4
(-3)
A 		7.7
(0.9)
A 		6.6
(0.3)
A 		10.3
(2.6)
A 		1.7
(-2.8)
A 		11
(3)
A 		10
avr 6.4
(-1.4) 		8
(3) 		5.8
(-3) 		5.9
(-2.7) 		6.6
(-0.8) 		8
(3) 		2
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187259_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.7012
Sequence Type Exemplar sequence
Representative Public ID C28H8.7 NCBI
Target Description C28H8.7 /REP_DB=WormBase Gene ID /WP=CE01829 /TR=SW:Q09245 /GB=AAA62295.1 /SUBMIT=ST.LOUIS /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_065877(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065877 NCBI Caenorhabditis elegans C28H8.7 (C28H8.7) mRNA, complete cds. 11/11 None
SNAP00000005429 ENSEMBL cdna:SNAP chromosome:CEL140:III:5885796:5887397:-1 11/11 None
GENEFINDER00000005450 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:5885796:5886905:-1 11/11 None
C28H8.7 ENSEMBL cdna:known chromosome:CEL140:III:5885796:5886905:-1 gene:C28H8.7 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
chrIII:5885794-5886904(-) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C28H8.7
Entrez Gene 182997 Entrez gene
SwissProt Q09245 EMBL-EBI
WormBase CE01829 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_498278 C28H8.7 [Caenorhabditis elegans] gb|AAA62295.1| Hypothetical protein C28H8.7 [Caenorhabditis elegans] sp|Q09245|YP97_CAEEL Hypothetical protein C28H8.7 in chromosome III 1.0E-158
blast NP_498278 C28H8.7 [Caenorhabditis elegans] gb|AAA62295.1| Hypothetical protein C28H8.7 [Caenorhabditis elegans] sp|Q09245|YP97_CAEEL Hypothetical protein C28H8.7 in chromosome III 1.0E-121
blast AAA62296 Hypothetical protein C28H8.8 [Caenorhabditis elegans] 7.0E-45
blast AAA62296 Hypothetical protein C28H8.8 [Caenorhabditis elegans] 2.0E-12
blast CAB00871 Hypothetical protein R09H10.2 [Caenorhabditis elegans] ref|NP_501961.1| R09H10.2 [Caenorhabditis elegans] 5.0E-11
Protein Domains
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_498278.1 1 7-24
C28H8.7 1 7-24
GENEFINDER00000005450 1 7-24
Sequence
Target Sequence 
>C. ELEGANS:187259_AT
gaaggagccgtttgtattcgtcacaattggaaattatacggattctagaactcggaaaaa
tatgacagatgaacttccaacggacttaaaaacctacgggacccacctgaactcatcaaa
tatttattgggattatggttccttggcaaactacttgaatcaatccgagtcggcgggtat
tggacacttttcaacgtatctcaaaactcaagtgaatcataaggttatcgatttgatctc
aattaaagaagaagtaaacaattataaaatattccatgaaatctcgagaatgggcaaatt
ggatgaaaacgggcaaattgtatgtcaaattgaaattcgccttgctccaccaacttctca
aacaattaagcatctcatggcaggactttcactaatttttaatgattctcgatatgtact
tctttcatttcataatcttgaactctttctggtca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGGAGCCGTTTGTATTCGTCACA 698 331 360 Antisense
GACAGATGAACTTCCAACGGACTTA 340 369 423 Antisense
GACCCACCTGAACTCATCAAATATT 92 381 459 Antisense
TATGGTTCCTTGGCAAACTACTTGA 47 655 493 Antisense
ATCCGAGTCGGCGGGTATTGGACAC 658 11 522 Antisense
TGGACACTTTTCAACGTATCTCAAA 362 547 540 Antisense
CAAATTGAAATTCGCCTTGCTCCAC 423 193 685 Antisense
CTCCACCAACTTCTCAAACAATTAA 262 233 704 Antisense
AGCATCTCATGGCAGGACTTTCACT 574 77 728 Antisense
GTACTTCTTTCATTTCATAATCTTG 42 461 775 Antisense
CATAATCTTGAACTCTTTCTGGTCA 342 213 790 Antisense
Sequence Source Affymetrix Proprietary Database