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[187278_at]

Description C28H8.5 /REP_DB=WormBase Gene ID /WP=CE01827 /TR=SW:Q09244 /GB=AAA62293.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 83      4grp_total > 56      6grp_total_sub > Hat      6grp_rule_based > S4      4grp_rule_based > L3      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 1485
1 2 3 4 range
A 14.7
(-3)
A 		837.4
(0.7)
P 		1343.8
(3)
P 		115
(-2.5)
A 		1329
B 10.9
(-3)
A 		902.8
(0.8)
P 		1417
(3)
P 		161
(-2.4)
A 		1406
C 14.8
(-3)
A 		924.6
(0.7)
P 		1496.1
(3)
P 		89.9
(-2.7)
A 		1481
avr 13.5
(-3) 		888.3
(0.7) 		1419
(3) 		122
(-2.5) 		1406

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 1182
1 2 3 4 5 6 range
A 11.3
(-3)
A 		489.9
(-0.6)
P 		566.4
(-0.2)
P 		1193.7
(3)
P 		902.6
(1.5)
P 		686.5
(0.4)
P 		1182
B 17.9
(-3)
A 		545.1
(-0.1)
P 		684
(0.7)
P 		1110.1
(3)
P 		974.3
(2.3)
P 		428
(-0.7)
P 		1092
C 14
(-3)
A 		559.1
(0.2)
P 		467.6
(-0.3)
P 		1040.5
(3)
P 		969.9
(2.6)
P 		457.8
(-0.4)
P 		1027
avr 14.4
(-3) 		531.4
(-0.2) 		572.7
(0) 		1114.8
(3) 		948.9
(2.1) 		524.1
(-0.2) 		1100
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 518
1 2 3 4 range
A 5.4
(-3)
A 		181.8
(0.1)
P 		351.3
(3)
P 		16.8
(-2.8)
A 		346
B 3.5
(-3)
A 		223
(1.1)
P 		328.3
(3)
P 		34.3
(-2.4)
A 		325
C 4.9
(-3)
A 		265.8
(0)
P 		521.4
(3)
P 		15.2
(-2.9)
A 		517
avr 4.6
(-3) 		223.5
(0.3) 		400.3
(3) 		22.1
(-2.7) 		396

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 394
1 2 3 4 5 6 range
A 2.1
(-3)
A 		174.2
(0.4)
P 		123.4
(-0.6)
P 		302.7
(3)
P 		272.4
(2.4)
P 		167.1
(0.3)
P 		301
B 6.2
(-3)
A 		181.4
(-0.3)
P 		166.1
(-0.5)
P 		294
(1.4)
P 		395.8
(3)
P 		159.6
(-0.6)
P 		390
C 5.2
(-3)
A 		170.6
(0.2)
P 		119
(-0.8)
P 		209.2
(1)
P 		313.8
(3)
P 		153.3
(-0.1)
P 		309
avr 4.5
(-3) 		175.4
(0.2) 		136.2
(-0.6) 		268.6
(1.9) 		327.3
(3) 		160
(-0.1) 		323
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 187278_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.6911
Sequence Type Exemplar sequence
Representative Public ID C28H8.5 NCBI
Target Description C28H8.5 /REP_DB=WormBase Gene ID /WP=CE01827 /TR=SW:Q09244 /GB=AAA62293.1 /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_065876(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065876 NCBI Caenorhabditis elegans C28H8.5 (C28H8.5) mRNA, complete cds. 11/11 None
GENEFINDER00000005447 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:5884400:5885724:1 11/11 None
SNAP00000005428 ENSEMBL cdna:SNAP chromosome:CEL140:III:5884719:5885724:1 9/11 None
C28H8.5 ENSEMBL cdna:known chromosome:CEL140:III:5884256:5885724:1 gene:C28H8.5 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:5884254-5885723(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl C28H8.5
Entrez Gene 182996 Entrez gene
SwissProt Q09244 EMBL-EBI
WormBase CE01827 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast NP_498277 C28H8.5 [Caenorhabditis elegans] gb|AAA62293.1| Hypothetical protein C28H8.5 [Caenorhabditis elegans] sp|Q09244|YP95_CAEEL Hypothetical protein C28H8.5 precursor 1.0E-163
blast NP_498277 C28H8.5 [Caenorhabditis elegans] gb|AAA62293.1| Hypothetical protein C28H8.5 [Caenorhabditis elegans] sp|Q09244|YP95_CAEEL Hypothetical protein C28H8.5 precursor 1.0E-140
blast CAE64368 Hypothetical protein CBG09055 [Caenorhabditis briggsae] 1.0E-122
blast NP_498277 C28H8.5 [Caenorhabditis elegans] gb|AAA62293.1| Hypothetical protein C28H8.5 [Caenorhabditis elegans] sp|Q09244|YP95_CAEEL Hypothetical protein C28H8.5 precursor 2.0E-93
blast CAE64368 Hypothetical protein CBG09055 [Caenorhabditis briggsae] 2.0E-89
blast CAE66008 Hypothetical protein CBG11199 [Caenorhabditis briggsae] 7.0E-53
blast CAE66008 Hypothetical protein CBG11199 [Caenorhabditis briggsae] 9.0E-53
Protein Domains
Database ID Description E-Value
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 1.8E-9
Pfam IPR003582 EMBL-EBI Metridin-like ShK toxin 1.8E-9
Sequence
Target Sequence 
>C. ELEGANS:187278_AT
ggagctagtcaattcacattgtccgagaacttgtcaaacttgtggagaaccaatagaccc
caagtacgacgtaaaactcctccctgctaaactgaaatcaatcgcttggatggttggaag
atggaggtcagaatttggaggaaaagcatttttcccaactattccaaagtttacgtatgg
agaacaagtggatatcaccattgccgataattcacaagatacacatacgccattactgaa
ttataccgcgttcgcctgggatatcaatatgccagacggtgatccaactgaaattcattc
tgagaacggatatattgctgttgaatatgataaagagcaagagaaggaatatgtctcact
gaatactgcaatgagtaatggattcatgacaatcgaggaaggagaatctggaccgaatca
agtgaagtttaggctgcaaagaattgggagaatcagtttttcgcacgactctgctgttcg
aattatgttccgtgaatggactcttctcgatgaaaatcgtttagaagcccgtcttctaat
gaccacaacaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGAGCTAGTCAATTCACATTGTCCG 290 521 315 Antisense
GAGAACCAATAGACCCCAAGTACGA 523 391 359 Antisense
CTCCTCCCTGCTAAACTGAAATCAA 562 235 391 Antisense
GGATATCACCATTGCCGATAATTCA 562 509 504 Antisense
GATACACATACGCCATTACTGAATT 563 423 532 Antisense
TATACCGCGTTCGCCTGGGATATCA 252 661 556 Antisense
CAATATGCCAGACGGTGATCCAACT 118 181 579 Antisense
GGAGAATCAGTTTTTCGCACGACTC 343 519 761 Antisense
TCGCACGACTCTGCTGTTCGAATTA 119 601 775 Antisense
GTTCCGTGAATGGACTCTTCTCGAT 504 441 801 Antisense
GCCCGTCTTCTAATGACCACAACAA 528 285 841 Antisense
Sequence Source Affymetrix Proprietary Database